gebhart/patrepeval huggingface dataset:
Down-regulation of SNAIL suppresses MIN mouse tumorigenesis: Modulation of apoptosis, proliferation, and fractal dimension (2004)

We show, for the first time, that SNAIL overexpression is important in intestinal tumorigenesis. While this PMO regimen afforded modest SNAIL suppression and hence tumor reduction, this provides compelling evidence for the role of SNAIL overexpression in colonic neoplasia.
C1q-targeted inhibition of the classical complement pathway prevents injury in a novel mouse model of acute motor axonal neuropathy (2016)

In this study, we first developed a new in vivo transgenic mouse model of AMAN using mice that express complex gangliosides exclusively in neurons, thereby enabling specific targeting of axons with anti-ganglioside antibodies. Secondly, we have evaluated the efficacy of a novel anti-C1q antibody (M1) that blocks initiation of the classical complement cascade, in both the newly developed anti-GM1 antibody-mediated AMAN model and our established MFS model in vivo. Anti-C1q monoclonal antibody treatment attenuated complement cascade activation and deposition, reduced immune cell recruitment and axonal injury, in both mouse models of GBS, along with improvement in respiratory function. These results demonstrate that neutralising C1q function attenuates injury with a consequent neuroprotective effect in acute GBS models and promises to be a useful new target for human therapy.
Two lipases from Candida antarctica: cloning and expression in Aspergillus oryzae (1995)

The basidiomycetous yeast Candida antarctica expresses two lipases that possess widely different properties. The genes LIPA and LIPB encoding both lipases were cloned and sequenced. Both lipases were secreted efficiently from Aspergillus oryzae transformed with lipase expression plasmids. N-Glycosylation was slightly more extensive in the heterologously expressed enzymes than in those purified from C. antarctica, but the enzymatic characteristics were retained. Both enzymes are encoded as preproenzymes. Proteolytic processing of the primary translation product was efficient in A. oryzae and resulted in the same N-terminals as in C. antarctica. Modifications or deletions of the propeptide of lipase component B did not prevent efficient secretion of active lipase from A. oryzae. Alternative proteolytic processing of the modified propeptides was detected. Key words: Lipase, Candida, cloning, Aspergillus, expression, propeptide.
Dealing with Student Credit Card DEBT (1999)

While most students use credit cards responsibly, it is estimated that more than one in ten students do not. These students are at risk for accumulating a level of debt that can seriously undermine their future. What can, and should, we do to help?
Enhanced Cellulase Production by a Mutant of Trichoderma viride (1971)

A mutant strain that secretes twice as much cellulase as its parent was obtained by irradiating conidia of Trichoderma viride QM 6a with a linear accelerator.
Simplified, data-driven, errorable car-following model to predict the safety effects of distracted driving (2012)

An errorable car-following model is presented in this paper. The model was developed to predict the situational risk associated with distracted driving. To obtain longitudinal driving patterns, this paper analyzed and synthesized the NGSIM naturalistic driver and traffic database to identify essential driver behavior and characteristics. NGSIM data was modified according to data from cognitive psychology concepts to examine the probabilistic nature of distracted driving due to internal vehicle distractions. The errorable microscopic car-following model was developed and validated, which can be fully integrated with the naturalistic data and incorporate the probabilities of driver distraction. The proposed model predicts that distracted driving in congested conditions can result in crash rates 3.25 times that of normal driving conditions.
Anticancer Targets in the Glycolytic Metabolism of Tumors: A Comprehensive Review (2011)

CANCER IS A METABOLIC DISEASE AND THE SOLUTION OF TWO METABOLIC EQUATIONS: to produce energy with limited resources and to fulfill the biosynthetic needs of proliferating cells. Both equations are solved when glycolysis is uncoupled from oxidative phosphorylation in the tricarboxylic acid cycle, a process known as the glycolytic switch. This review addresses in a comprehensive manner the main molecular events accounting for high-rate glycolysis in cancer. It starts from modulation of the Pasteur Effect allowing short-term adaptation to hypoxia, highlights the key role exerted by the hypoxia-inducible transcription factor HIF-1 in long-term adaptation to hypoxia, and summarizes the current knowledge concerning the necessary involvement of aerobic glycolysis (the Warburg effect) in cancer cell proliferation. Based on the many observations positioning glycolysis as a central player in malignancy, the most advanced anticancer treatments targeting tumor glycolysis are briefly reviewed.
Percolation and cluster distribution. I. Cluster multiple labeling technique and critical concentration algorithm (1976)

A new approach for the determination of the critical percolation concentration, percolation probabilities, and cluster size distributions is presented for the site percolation problem. The novel "cluster multiple labeling technique" is described for both two- and three-dimensional crystal structures. Its distinctive feature is the assignment of alternate labels to sites belonging to the same cluster. These sites are members of a simulated finite random lattice. An algorithm useful for the determination of the critical percolation concentration of a finite lattice is also presented. This algorithm is especially useful when applied in conjunction with the cluster multiple labeling technique. The basic features of this technique are illustrated by applying it to a small planar square lattice. Numerical results are given for a triangular subcrystal containing up to 9 000 000 sites. These results compare favorably with the exact value of the infinite lattice critical percolation concentration.
Identification of Retroviral Late Domains as Determinants of Particle Size (1999)

Retroviral Gag proteins, in the absence of any other viral products, induce budding and release of spherical, virus-like particles from the plasma membrane. Gag-produced particles, like those of authentic retrovirions, are not uniform in diameter but nevertheless fall within a fairly narrow distribution of sizes. For the human immunodeficiency virus type 1 (HIV-1) Gag protein, we recently reported that elements important for controlling particle size are contained within the C-terminal region of Gag, especially within the p6 sequence (L. Garnier, L. Ratner, B. Rovinski, S.-X. Cao, and J. W. Wills, J. Virol. 72:4667-4677, 1998). Deletions and substitutions throughout this sequence result in the release of very large particles. Because the size determinant could not be mapped to any one of the previously defined functions within p6, it seemed likely that its activity requires the overall proper folding of this region of Gag. This left open the possibility of the size determinant residing in a subdomain of p6, and in this study, we examined whether the late domain (the region of Gag that is critical for the virus-cell separation step) is involved in controlling particle size. We found that particles of normal size are produced when p6 is replaced with the totally unrelated late domain sequences from Rous sarcoma virus (contained in its p2b sequence) or equine infectious anemia virus (contained in p9). In addition, we found that the large particles released in the absence of p6 require the entire CA and adjacent spacer peptide sequences, whereas these internal sequences of HIV-1 Gag are not needed for budding (or proper size) when a late domain is present. Thus, it appears the requirements for budding are very different in the presence and absence of p6.
Mononuclear heterocyclic rearrangements. Part 10. Rearrangements in the 1,2,5-oxadiazole series (1977)

By studying the chemical behaviour of N-(4-methyl-1,2,5-oxadiazol-3-yl)-N′-phenylurea and of N-(4-methyl- or phenyl-1,2,5-oxadiazol-3-yl)-N′-arylformamidines in mononuclear heterocyclic rearrangements and comparing these results with those already obtained in the 1,2,4-oxadiazole and isoxazole series, relative tendencies towards mononuclear heterocyclic rearrangement have been estimated; viz. 1,2,4-oxadiazole > isoxazole > 1,2,5-oxadiazole.
Understanding tables with intermediate pre-training (2020)

Table entailment, the binary classification task of finding if a sentence is supported or refuted by the content of a table, requires parsing language and table structure as well as numerical and discrete reasoning. While there is extensive work on textual entailment, table entailment is less well studied. We adapt TAPAS (Herzig et al., 2020), a table-based BERT model, to recognize entailment. Motivated by the benefits of data augmentation, we create a balanced dataset of millions of automatically created training examples which are learned in an intermediate step prior to finetuning. This new data is not only useful for table entailment, but also for SQA (Iyyer et al., 2017), a sequential table QA task. To be able to use long examples as input of BERT models, we evaluate table pruning techniques as a pre-processing step to drastically improve the training and prediction efficiency at a moderate drop in accuracy. The different methods set the new state-of-the-art on the TAB-FACT (Chen et al., 2020) and SQA datasets.
Studies of Factors V and VIII:C in an animal model of disseminated intravascular coagulation. (1984)

An experimental animal model of disseminated intravascular coagulation (DIC) induced by the co-infusion of coagulant-active phospholipid and activated Factor X (Factor Xa) is described. The infusion of Factor Xa at a dose of 6.6 X 10(-12) mol/kg with phosphatidylcholine/phosphatidylserine (PCPS) lipid vesicles at a dose of 4.0 X 10(-8) mol/kg was associated with significant falls in the levels of fibrinogen and Factors V and VIII, and a bleeding diathesis developed. Assays of Factors V and VIII were performed by a one-stage prothrombin time and activated partial thrombin time system, respectively. In additional experiments, the effect of the same dose combination of Factor Xa/PCPS on Factor V kinetics was studied by preinfusing 125I-labeled Factor V. After Factor Xa/PCPS infusion, Factors VIII and V were reduced at 2 min by 90 and 50% of the preinfusion levels, respectively, and at 1 h by 80 and 75%, respectively. During the same period, there was little change in the total circulating radioactivity. Autoradiography indicated small but detectable levels of circulating proteolytic products of Factor V that comigrated with peptides obtained by the incubation of Factor V with Factor Xa and activated protein C. The majority of radioactivity remained associated with the intact single-chain precursor Factor V. These observations suggested maintenance of the precursor pool after the onset of DIC. This was confirmed by performing two-stage assays of Factors V and VIII, whereby each was completely converted to the active cofactor, i.e., Va and VIII:Ca, by preincubation of the test sample with thrombin before assaying in a one-stage system as before. The Factor V levels assayed by the two-stage procedure did not change appreciably over 1 h. The Factor VIII levels fell but corrected within 1 h at a time when the level measured by a one-stage assay remained depressed. These results indicate that in the dog, infusion of Factor Xa/PCPS induces changes characteristic of DIC, and this is associated with the appearance of Factor V peptides characteristic of the expression of Factor Xa and activated protein C-like activities. The differences noted between the one-stage and two-stage assays suggest that the one-stage assay is measuring the activated fraction of each cofactor and not the total level of the available precursor for each activated species. The results suggest a close correlation between the activated fraction of both cofactors and the hemostatic abnormality that occurs in DIC.
Dipole modeling of interictal and ictal EEG and MEG paroxysms. (2001)

Dipole modeling procedures can be used to statistically estimate the location and the orientation of intracerebral sources of electroencephalographic (EEG) and magnetoencephalographic (MEG) signals. These methods have been applied to interictal spikes for more than 20 years and suggest that interictal paroxysms might be generated by a network of cortical structures rather than by a focal area. In this review we address the questions of (1) the spatial extend of this network in different types of epilepsies, (2) the spatial relationship between this network and other structural of functional abnormalities as assessed by Magnetic Resonance Imaging (MRI) or Positron Emission Tomography (PET), and (3) the reliability of dipole sources of interictal and ictal paroxysms. Dipole modeling results suggest that, in temporal lobe epilepsies, both neocortical and mesio-temporal structures are involved during interictal spikes; frontal lobe epilepsies are often characterized by more complex source distributions, that, in general, involve a large area and bilateral frontal structures. In addition, dipole modeling results are also found in close agreement with MRI data in cases where focal dysplasia or heterotopia are diagnosed. Nevertheless, in most other cases, sources of interictal spikes and MRI lesions, though overlapping in space, are not totally congruent. The best concordance between sources of interictal spikes and glucose hypometabolism on PET data is usually found for temporal lobe epilepsies. Most often, intracranial and intracerebral recordings validate both the localization and the time activation of interictal spike dipoles. However, results obtained for ictal discharges are less reliable, which therefore addresses the usefulness of dipole modeling procedures in assessing sources of ictal discharges. In conclusion, dipole modeling results can rarely be used in planning a selective surgery without invasive recordings. However, the studies reviewed in this paper strongly suggest that their analysis, in combination with other non-invasive data, might be useful to better delineate the epileptogenic zone, and help the implantation of intracerebral electrodes.
Amino Acid Solutions for Premature Neonates During the First Week of Life: The Role of N‐Acetyl‐L‐Cysteine and N‐Acetyl‐L‐Tyrosine (1994)

Tyrosine and cyst(e)ine are amino acids that are thought to be essential for preterm neonates. These amino acids have low stability (cyst(e)ine) or low solubility (tyrosine) and are therefore usually present only in small amounts in amino acid solutions. Acetylation improves the stability and solubility of amino acids, facilitating a higher concentration in the solution. We compared three commercially available amino acid solutions, Aminovenös-N-päd 10%, Vaminolact 6.5%, and Primène 10%, administered to 20 low-birth-weight neonates on total parenteral nutrition from postnatal day 2 onward. Aminovenös-N-päd 10% contains acetylated tyrosine and acetylated cysteine; the other solutions do not contain acetylated amino acids and differ in the amount of tyrosine and cysteine added. On postnatal day 7, plasma amino acids were measured together with urinary excretion of amino acids and the total nitrogen excretion; 38% of the intake of N-acetyl-L-tyrosine and 53% of the intake of N-acetyl-L-cysteine were excreted in urine. Plasma levels of N-acetyl-L-tyrosine (331 +/- 74 mumol/L) and N-acetyl-L-cysteine (18 +/- 29 mumol/L) were higher than those of tyrosine (105 +/- 108 mumol/L) and cystine (11 +/- 9 mumol/L), respectively. Plasma tyrosine levels in the groups receiving small amounts of tyrosine remained just below the reference range. We show a linear correlation of plasma cystine with the intake of cysteine (r = .75, p = 0.01), but not with N-acetyl-L-cysteine. The estimated intake of cysteine should be 500 mumol.kg-1.d-1 in order to obtain levels comparable with those shown in normal term, breast-fed neonates. Nitrogen retention did not differ among the three groups (247 to 273 mg.kg-1.d-1).(ABSTRACT TRUNCATED AT 250 WORDS)
Identification of four new members of the internalin multigene family of Listeria monocytogenes EGD (1997)

Listeria monocytogenes is a bacterial pathogen that is able to invade nonphagocytic cells. Two surface proteins, internalin, the inlA gene product, and InlB, play important roles in the entry into cultured mammalian cells. These proteins also have extensive sequence similarities. Previously, Southern hybridization predicted the existence of an internalin multigene family. Recently, InlC, a secreted protein of 30 kDa homologous to InlA and InlB, was identified. In this work, we identified and characterized four new members of the internalin multigene family, inlC2, inlD, inlE, and inlF which encode proteins of 548, 567, 499, and 821 amino acids respectively. inlC2, inlD, and inlE are contiguous on the chromosome of L. monocytogenes EGD, whereas inlF is located in a different chromosomal region. These four inl gene products display the principal features of internalin, namely, a signal sequence, two regions of repeats (or LRR and B repeats), and a putative cell wall anchor sequence containing the sorting motif LPXTG. The four inl genes were maximally expressed albeit at a low level during early exponential growth in bacterial medium at 37 degrees C. The role of these inl genes in L. monocytogenes invasion was assessed by constructing isogenic chromosomal deletion mutants and testing them for entry into various nonphagocytic cells. Unexpectedly, the inlC2, inlD, inlE, and inlF null mutants were not affected for entry into any of the cell lines tested, raising the possibility that these genes are needed for an aspect of pathogenicity other than invasion. The identity of such an aspect remains to be determined.
CTLA-4 and PD-1 Pathway Blockade: Combinations in the Clinic (2015)

Checkpoint blocking antibodies targeting regulatory molecules on T cells such as CTLA-4 and PD-1 have reinvigorated the field of cancer immunotherapy. These agents have demonstrated clinical activity across a variety of tumor types. Now that safety and clinical activity has been demonstrated in the monotherapy setting, the field is moving in the direction of testing novel combinations.
PathNet: Evolution Channels Gradient Descent in Super Neural Networks (2017)

For artificial general intelligence (AGI) it would be efficient if multiple users trained the same giant neural network, permitting parameter reuse, without catastrophic forgetting. PathNet is a first step in this direction. It is a neural network algorithm that uses agents embedded in the neural network whose task is to discover which parts of the network to re-use for new tasks. Agents are pathways (views) through the network which determine the subset of parameters that are used and updated by the forwards and backwards passes of the backpropogation algorithm. During learning, a tournament selection genetic algorithm is used to select pathways through the neural network for replication and mutation. Pathway fitness is the performance of that pathway measured according to a cost function. We demonstrate successful transfer learning; fixing the parameters along a path learned on task A and re-evolving a new population of paths for task B, allows task B to be learned faster than it could be learned from scratch or after fine-tuning. Paths evolved on task B re-use parts of the optimal path evolved on task A. Positive transfer was demonstrated for binary MNIST, CIFAR, and SVHN supervised learning classification tasks, and a set of Atari and Labyrinth reinforcement learning tasks, suggesting PathNets have general applicability for neural network training. Finally, PathNet also significantly improves the robustness to hyperparameter choices of a parallel asynchronous reinforcement learning algorithm (A3C).
Efficacy of sodium bentonite as a detoxifier of broiler feed contaminated with aflatoxin and fumonisin (2005)

Sodium bentonite (SB) was evaluated for its ability to reduce the deleterious effects of fumonisin B1 (FB1) and aflatoxin B1 (AFB1) in broiler diets. It was incorporated into the diets (0.3%) containing 2.5 mg/kg AFB1, 200 mg/kg FB1, or a combination of 2.5 mg/kg AFB1 and 200 mg/kg FB1. Aflatoxin B1 significantly diminished body weight gain, whereas FB1 or the combination of FB1 and SB had no effect. Addition of SB in the diets significantly diminished the inhibitory effects of dietary AFB1. Feeding AFB1 alone caused significant increases in the relative weights of most observed organs. Feeding FB1 alone did not alter relative weights of any organs. In the combined diet (AFB1 plus FB1) relative weights of the liver, kidney, gizzard, and spleen were increased. Addition of SB to the diet containing AFB1 diminished the relative weights of liver, kidney, and spleen. Addition of SB to diets containing AFB1 and FB1 only decreased liver weights. In relation to the control, lower serum levels of total protein, albumin, and globulins were observed for all AFB, containing diets without SB addition, whereas all other treatments were not altered. Livers of birds fed diets containing AFB1 and a combination of AFB1 and FB1 were enlarged, yellowish, friable, and had rounded borders. The histopathology of them, stained with hematoxylin and eosin, showed multifocal and varied cytoplasmatic vacuolization with perilobular location. Incorporation of SB reduced the incidence and severity of the hepatic histopathology changes associated with aflatoxicosis.
Melatonin Signal Transduction in Hamster Brain: Inhibition of Adenylyl Cyclase by a Pertussis Toxin- Sensitive G Protein* (1989)

Melatonin signal transduction was examined in median eminence/pars tuberalis (ME/PT) explants from Djungarian hamsters. High affinity melatonin receptors in hamster ME/PT were first quantified by in vitro autoradiography using the potent melatonin agonist 125I-labeled melatonin ([125I]MEL). Scatchard analysis of [125I]MEL binding in ME/PT revealed high affinity receptors [dissociation constant (Kd) = 2.75 X 10(-11) M]. [125I]MEL binding was markedly reduced by guanine nucleotides; treatment with the nonhydrolyzable GTP analog guanosine 5'-O-(3-thiotriphosphate) caused a 10-fold decrease in receptor affinity. Melatonin (10 nM) significantly inhibited forskolin-stimulated cAMP accumulation in ME/PT, but not in pituitary or pineal glands. In ME/PT explants, melatonin and 6-chloromelatonin inhibited forskolin-stimulated cAMP accumulation in a dose-dependent manner with similar potency (significant inhibition for each at concentrations greater than or equal to 100 pM). Serotonin significantly inhibited forskolin-stimulated cAMP levels only at doses greater than or equal to 100 microM. Inhibition of [125I]MEL binding in ME/PT by these three indolamines paralleled that determined for inhibition of forskolin-stimulated cAMP accumulation. Pertussis toxin treatment (1 microgram/ml) blocked the ability of melatonin (10 nM) to inhibit forskolin-stimulated cAMP accumulation and significantly reduced [125I]MEL binding. Pertussis toxin ADP-ribosylated the alpha-subunits of at least two guanine nucleotide-binding proteins in ME/PT explants with molecular weights of approximately 40 K. Melatonin did not increase phosphodiesterase activity in ME/PT explants. The results strongly suggest that a signal transduction pathway for melatonin in mammals involves inhibition of adenylyl cyclase by a pertussis toxin-sensitive guanine nucleotide-binding protein.
Biochemistry of Interferon and its Inducers (1972)

The Hippo pathway was initially discovered in Drosophila melanogaster as a key regulator of tissue growth. It is an evolutionarily conserved signaling cascade regulating numerous biological processes, including cell growth and fate decision, organ size ...Read More