gebhart/patrepeval huggingface dataset:
Chloride Conductance Expressed by ΔF508 and Other Mutant CFTRs In Xenopus Oocytes (1991)

The cystic fibrosis transmembrane conductance regulator (CFTR) is associated with expression of a chloride conductance that is defective in cystic fibrosis (CF). Xenopus oocytes injected with RNA coding for CFTR that contained mutations in the first nucleotide binding fold (NBF1) expressed chloride currents in response to raising adenosine 3',5'-monophosphate (cAMP) with forskolin and 3-isobutyl-1-methylxanthine (IBMX). The mutant CFTRs were less sensitive than wild-type CFTR to this activating stimulus, and the reduction in sensitivity correlated with the severity of cystic fibrosis in patients carrying the corresponding mutations. This demonstration provides the basis for detailed analyses of NBF1 function and suggests potential pharmacologic treatments for cystic fibrosis.
DNA sequences and characterization of four early genes of the tryptophan pathway in Pseudomonas aeruginosa (1990)

Two pairs of related but easily distinguishable genes for the two subunits of anthranilate synthase have been identified in Pseudomonas aeruginosa. These were cloned, sequenced, inactivated in vitro by insertion of an antibiotic resistance cassette, and returned to the P. aeruginosa chromosome, replacing the wild-type gene. Gene replacement implicated only one of the pairs in tryptophan biosynthesis. This report describes the cloning and sequencing of the tryptophan-related gene pair, designated trpE and trpG, and presents experiments implicating their gene products in tryptophan production. DNA sequence analysis as well as growth and enzyme assays of insertionally inactivated strains indicated that trpG is the first gene in a three-gene operon that also includes trpD and trpC. Complementation of Trp auxotrophs by R-prime plasmids (T. Shinomiya, S. Shiga, and M. Kageyama, Mol. Gen. Genet., 189:382-389, 1983) has shown that a large cluster of pyocin R2 genes is flanked at one end by trpE and the other end by trpDC; the physical map that was obtained shows the distance between trpE and trpDC to be about 25 kilobases. Our restriction map of the trpE and trpGDC regions agrees with data presented by Shinomiya et al.
Isolation of Endoglucanase Genes from Pseudomonas fluorescens subsp. cellulosa and a Pseudomonas sp (1986)

Endoglucanase genes from Pseudomonas fluorescens subsp. cellulosa and Pseudomonas sp. were cloned and characterized. DNA hybridization studies showed that these genes are homologous and that each species has one copy of the gene per genome. The DNA fragment from Pseudomonas sp. codes for, at most, a 23-kilodalton endoglucanase.
surA, an Escherichia coli gene essential for survival in stationary phase (1990)

Mutations in genes not required for exponential growth but essential for survival in stationary phase were isolated in an effort to understand the ability of wild-type Escherichia coli cells to remain viable during prolonged periods of nutritional deprivation. The phenotype of these mutations is referred to as Sur- (survival) and the genes are designated sur. The detailed analysis of one of these mutations is presented here. The mutation (surA1) caused by insertion of a mini-Tn10 element defined a new gene located near 1 min on the E. coli chromosome. It was located directly upstream of pdxA and formed part of a complex operon. Evidence is presented supporting the interpretation that cells harboring the surA1 mutation die during stationary phase while similar insertion mutations in other genes of the operon do not lead to a Sur- phenotype. Strains harboring surA1 had a normal doubling time in both rich and minimal medium, but cultures lost viability after several days in stationary phase. Analysis of revertants and suppressors of surA1, which arose after prolonged incubation in stationary phase, indicates that DNA rearrangements (excisions and duplications) occurred in cultures of this strain even when the viable-cell counts were below 10(2) cells per ml. Cells containing suppressing mutations then grew in the same culture to 10(8) cells per ml, taking over the population. The implications of these observations to our understanding of stationary-phase mutagenesis are discussed.
The rearrangement of antigen-receptor gene segments controls lymphocyte development (2001)

A method to determine emissions from the actual car fleet under realistic driving conditions has been developed. The method is based on air quality measurements, traffic counts and inverse application of street air quality models. Many pollutants are of importance for assessing the adverse impact of the air pollution, e.g. NO2, CO, lead, VOCs and particulate matter. Aromatic VOCs are of special great concern due to their adverse health effects. Measurements of benzene, toluene and xylenes were carried out in central Copenhagen since 1994. Significant correlation was observed between VOCs and CO concentrations, indicating that the petrol engine vehicles are the major sources of VOC air pollution in central Copenhagen. Hourly mean concentrations of benezene were observed to reach values of up to 20 ppb, what is critically high according to the WHOs recommendations. Based on inverse model calculation of dispersion of pollutants in street canyons, an average emission factor of benzene for the fleet of petrol fuelled vehicles was estimated to be 0.38 g/km in 1994 and 0.11 in 1997. This decrease was caused by the reduction of benzene content in Danish petrol since summer 1995 and increasing percentage of cars equipped with three-way catalysts. The emission factors for benzene for diesel-fuelled vehicles were low.
Long-term occlusion of the porcine cystic duct by means of endoluminal radio-frequency electrocoagulation. (1988)

Recurrent cholelithiasis must be expected after gallstone removal without cholecystectomy. Chemical gallbladder ablation may offer prevention but requires preliminary cystic duct occlusion. Radio-frequency (RF) electrocoagulation of the cystic duct was performed in 15 pigs to induce occlusion by a controlled thermal epithelial injury. A flexible coagulation catheter was placed into the cystic duct lumen under fluoroscopic control by means of either subhepatic cholecystostomy or direct, percutaneous transhepatic gallbladder puncture. Complete cystic duct occlusion was proved in 14 animals. Follow-up ranged from 1 to 17 weeks (mean, 11 weeks). Histologically, the RF technique induced an intense chronic inflammatory and fibroblastic reaction, which eventually obliterated the coagulated cystic duct segments. There was no epithelial regeneration or recanalization of the fibrotic cystic duct segments. The adjacent structures, particularly the cystic artery, were intact in all specimens.
That would be his head (1989)

Doesn9t Dr. DiTraglia want to protect what Woody Allen has referred to as a man9s second favorite organ? Gears to you-
Ectopic Expression of Human Telomerase RNA Component Results in Increased Telomerase Activity and Elongated Telomeres in Bovine Blastocysts1 (2012)

Telomeres play an important role in aging, and are critical for the regenerative capacity of mammalian cells. The holoenzyme telomerase rebuilds telomeres and is composed of two components, the catalytic protein telomerase reverse transcriptase (TERT) and the telomerase RNA (TERC). TERC is ubiquitously expressed in somatic cells and is thought to have no regulatory effects on telomerase activity. Transgenic expression of human TERT (hTERT) in bovine somatic and embryonic cells extends telomere length and enhances telomerase activity. To obtain further insight into the regulatory capacity of the two telomerase components, we have studied the ability of hTERC and hTERT to increase telomerase activity and telomere length in bovine embryos. Expression plasmids for the human RNA component (hTERC) and/or the catalytic subunit of human telomerase (hTERT), respectively, were injected into the cytoplasm of in vitro-produced bovine zygotes. Ectopic expression of hTERC increased telomerase activity and telomere length in bovine blastocysts. Coexpression of hTERT and hTERC did not result in further telomere elongation when compared to the hTERC group. These data indicate that TERC is one of the limiting factors of telomerase activity in bovine blastocysts, and further establish bovine preimplantation embryos as a useful model to modulate telomere length with impact for basic embryology and derivation of pluripotent cells.
l-Lysine Production by S-(2-Aminoethyl)l-Cysteine and α-Amino-β-hydroxyvareIic Acid Resistant Mutants ofBrevibacterium lactofermentum (1978)

The regulation of aspartokinase (EC 2.7.2.4) in Brevibacterium lactofermentum was studied. One mM of lysine or threonine or threonine plus lysine inhibited the activity of aspartokinase to the levels of 45, 41 or 81%, respectively, as compared with no addition. In order to obtain mutants with aspartokinase which is genetically desensitized to the feedback inhibition, we tried to derive mutant resistant to S-(2-aminoethyI) l-cysteine (AEC) or α-amino-β-hydroxyvarelic acids (AHV) from B. lactofermentum. Most of AEC resistant mutants produced more than 5 mg/ml of l-lysine. These aspar- tokinase were not inhibited by threonine or threonine plus lysine, but inhibited by lysine. On the other hand, about 30 % of AHV resistant mutants produced more than 5 mg/ml of L-lysine and these aspartokinases were partially desensitized to the feedback inhibition by lysine. Furthermore, the homoserine dehydrogenase level and the degree of inhibition by threonine in AHV resistant mutants were almost the same as those in parental strain. Both AEC and AHV resistant mutants produced l-lysine twofold as compared with that of either AEC or AHV resistant mutants. The data provide significant evidence that aspartokinase in Brevibacterium lactofermentum was subject to the single or concerted regulation by threonine and lysine.
A randomized, double-blind, placebo-controlled phase 1 trial of inhaled and intranasal niclosamide: A broad spectrum antiviral candidate for treatment of COVID-19 (2021)

The study was funded by Innovationsfonden Denmark and UNION therapeutics.
Nanowire Crossbar Arrays as Address Decoders for Integrated Nanosystems (2003)

The development of strategies for addressing arrays of nanoscale devices is central to the implementation of integrated nanosystems such as biological sensor arrays and nanocomputers. We report a general approach for addressing based on molecular-level modification of crossed semiconductor nanowire field-effect transistor (cNW-FET) arrays, where selective chemical modification of cross points in the arrays enables NW inputs to turn specific FET array elements on and off. The chemically modified cNW-FET arrays function as decoder circuits, exhibit gain, and allow multiplexing and demultiplexing of information. These results provide a step toward the realization of addressable integrated nanosystems in which signals are restored at the nanoscale.
Fast shadows and lighting effects using texture mapping (1992)

Generating images of texture mapped geometry requires projecting surfaces onto a two-dimensional screen. If this projection involves perspective, then a division must be performed at each pixel of the projected surface in order to correctly calculate texture map coordinates.
Rat Transforming Growth Factor Type 1: Structure and Relation to Epidermal Growth Factor (1984)

The complete amino acid sequence of rat transforming growth factor type 1 has been determined. This growth factor, obtained from retrovirus-transformed fibroblasts, is structurally and functionally related to mouse epidermal growth factor and human urogastrone. Production of this polypeptide by various neoplastic cells might contribute to the continued expression of the transformed phenotype.
How I treat myelofibrosis (2011)

It is currently assumed that myelofibrosis (MF) originates from acquired mutations that target the hematopoietic stem cell and induce dysregulation of kinase signaling, clonal myeloproliferation, and abnormal cytokine expression. These pathogenetic processes are interdependent and also individually contributory to disease phenotype-bone marrow stromal changes, extramedullary hematopoiesis, ineffective erythropoiesis, and constitutional symptoms. Molecular pathogenesis of MF is poorly understood despite a growing list of resident somatic mutations that are either functionally linked to Janus kinase (JAK)-signal transducer and activator of transcription hyperactivation (eg JAK2, MPL, and LNK mutations) or possibly involved in epigenetic dysregulation of transcription (TET2, ASXL1, or EZH2 mutations). Current prognostication in primary MF is based on the Dynamic International Prognostic Scoring System-plus model, which uses 8 independent predictors of inferior survival to classify patients into low, intermediate 1, intermediate 2, and high-risk disease groups; corresponding median survivals are estimated at 15.4, 6.5, 2.9, and 1.3 years. Such information is used to plan a risk-adapted treatment strategy for the individual patient, which might include observation alone, conventional or investigational (eg, JAK inhibitors, pomalidomide) drug therapy, allogenic stem cell transplantation with reduced- or conventional-intensity conditioning, splenectomy, or radiotherapy. I discuss these treatment approaches in the context of who should get what and when.
Reactive ion beam deposition of thin films in the bismuth-calcium-strontium-copper oxide ceramic superconductor system (1988)

Reactive ion beam deposition has been used to grow c-axis-oriented superconducting thin films in the Bi-Ca-Sr-Cu-O (BCSCO) system around the cation ratio 1:1:1:1 on single-crystal (001) MgO. The films show a single superconducting transition with an initial onset near 85 K and a critical current of 5×104 A/cm2 at 10 K. Two different BCSCO-containing phases have been identified in the thin films: one with a tetragonal pseudo-body-centered subcell, c=24.4 Å, which is not superconducting above 28 K, and a second with c=30.6 Å, which is responsible for the superconductivity. Electron diffraction measurements on the 30.6 Å phase are consistent with those previously reported for the bulk ceramic.
Control of Viscoelasticity Using Redox Reaction (2004)

The viscoelasticity of a fluid was tuned with the Faradaic reaction of (11-ferrocenylundecyl)trimethylammonium bromide (FTMA), a "redox-switchable" surfactant. An aqueous solution of the reduced form of FTMA exhibited a remarkable viscoelasticity in the presence of sodium salicylate (NaSal) because of the formation of three-dimensional entanglement of wormlike micelles. Electrolytic oxidation of FTMA caused the viscosity of the system to dramatically decrease and the elasticity to disappear. This drastic decrease in viscoelasticity arose from the disruption of wormlike micelles. This novel electrorheological phenomenon is expected to be applicable to ink for inkjet printers, the electrochemically controlled release of substances entrapped in wormlike micelles of FTMA, and fluid flow rate control using electric signals.
Depressed or Demented: Common CNS Drug Targets? ! (2002)

A body of evidence emerging in antidepressant and antidementia research has revealed a convergence of molecular events known to regulate neuronal plasticity in learning and memory with molecular actions of drugs for the treatment of depression. Many antidepressants are reported to have positive impact on learning and memory. These include agents acting through monoaminergic neurotransmitter systems, non-monoaminergic transmitter systems, and hormones. On the other hand, agents that appear to have memory-enhancing or antidementia value are frequently found to exhibit antidepressant activity in patients and animal depression models. It is becoming clear that the comorbidity of depression and dementia does not occur by chance, but rather is an inevitable consequence of pathologic relationships between the conditions. Molecular mechanisms and cascades that underlie memory may be shared by mood regulation and are vulnerable to stress and injuries. This review focuses on recent findings regarding effects of a variety of agents on dementia and depression and their common molecular mechanisms as well as their differences. A better understanding of the key underlying molecular components whose changed activities have dramatic influences on mood and cognition may lead to the development of novel and more effective therapeutic agents for the treatment of depression and dementia. In this review, some of the recent findings that suggest novel therapeutic strategies are also highlighted.
Controlling the Translocation of Single-Stranded DNA through α-Hemolysin Ion Channels Using Viscosity (2008)

Translocation of single-stranded DNA through alpha-hemolysin (alpha-HL) channels is investigated in glycerol/water mixtures containing 1 M KCl. Experiments using glass nanopore membranes as the lipid bilayer support demonstrate that the translocation velocities of poly(deoxyadenylic acid), poly(deoxycytidylic acid), and poly(deoxythymidylic acid) 50-mers are decreased by a factor of approximately 20 in a 63/37 (vol %) glycerol/water mixture, relative to aqueous solutions. The ion conductance of alpha-HL and the entry rate of the polynucleotides into the protein channel also decrease with increasing viscosity. Precise control of translocation parameters by adjusting viscosity provides a potential means to improve sequencing methods based on ion channel recordings.
The Constitutional Council (2001)

The growing role of the constitutional judge since the 1970s has greatly contributed to the protection of fundamental rights and freedoms. However, the diversity of his attributions and the limits stemming from the form of his intervention hamper him and check the development of his jurisprudence. Any reform of his office and of the procedures followed before him will be conditioned by a redefinition of his competence focused on the control of norms.
Content-based image retrieval based on a fuzzy approach (2004)

A typical content-based image retrieval (CBIR) system would need to handle the vagueness in the user queries as well as the inherent uncertainty in image representation, similarity measure, and relevance feedback. We discuss how fuzzy set theory can be effectively used for this purpose and describe an image retrieval system called FIRST (fuzzy image retrieval system) which incorporates many of these ideas. FIRST can handle exemplar-based, graphical-sketch-based, as well as linguistic queries involving region labels, attributes, and spatial relations. FIRST uses fuzzy attributed relational graphs (FARGs) to represent images, where each node in the graph represents an image region and each edge represents a relation between two regions. The given query is converted to a FARG, and a low-complexity fuzzy graph matching algorithm is used to compare the query graph with the FARGs in the database. The use of an indexing scheme based on a leader clustering algorithm avoids an exhaustive search of the FARG database. We quantify the retrieval performance of the system in terms of several standard measures.
Clams as CO2 generators: The Potamocorbula amurensis example in San Francisco Bay (2003)

Respiration and calcium carbonate production by the invasive Asian clam, Potamocorbula amurensis , were calculated to assess their importance as CO 2 sources in northern San Francisco Bay. Production, calculated using monthly population density and size structure measured at three sites over 7 yr and a shell length/CaCO 3 conversion factor, averaged 221 (±184) g CaCO 3 m −2 yr −1 . Net calcium carbonate production by this exotic bivalve releases CO 2 at a mean rate of 18 (±17) g C m −2 yr −1 . Respiration by P. amurensis , estimated from secondary production, releases additional CO 2 at a mean rate of 37 (±34) g C m −2 yr −1 . Therefore, total net CO 2 production by P. amurensis averages 55 (±51) g C m −2 yr −1 in an estuarine domain where net primary production consumes only 20 g inorganic C m −2 yr −1 . CO 2 production by P. amurensis in northern San Francisco Bay is an underestimate of the total CO 2 supply from the calcified zoobenthic communities of San Francisco Bay, and results from other studies have suggested that this rate is not unusual for temperate estuaries. Global extrapolation yields a gross CO 2 production rate in the world's estuaries of 1 x 10 14 g C yr −1 , which suggests that calcified benthic organisms in estuaries generate CO 2 equal in magnitude to the CO 2 emissions from the world's lakes or from planetary volcanism (the net source is determined by the highly variable rate of CO 2 consumption by carbonate dissolution). This biogenic CO 2 source is increasing because of the continuing global translocation of mollusks and their successful colonization of new habitats.
Privacy in video surveilled areas (2006)

We present a system prototype for self-determination and privacy enhancement in video surveilled areas by integrating computer vision and cryptographic techniques into networked building automation systems. This paper describes research work that has been done within the first half of the collaborative blue-c-II project and is conducted by an interdisciplinary team of researchers. Persons in a video stream control their visibility on a per-viewer base and can choose to allow either the real view or an obscured image to be seen. The parts of the video stream that show a person are protected by an AES cipher and can be sent over untrusted networks. Experimental results are presented by the example of a meeting room scenario. The paper concludes with remarks on the usability and encountered problems.
Peptide‐specific CD8+ T‐cell evolution in vivo: Response to peptide vaccination with Melan‐A/MART‐1 (2002)

Monitoring of CD8+ T-cell responses in cancer patients during peptide vaccination is essential to provide useful surrogate markers and to demonstrate vaccine efficacy. We have longitudinally followed CD8+ T-cell responses in 3 melanoma patients who were immunized with peptides derived from Melan-A/MART-1. Recombinant HLA-A2 tetramers loaded with the naturally presented Melan-A/MART-1 nonamer peptide (AAGIGILTV) and the Melan-A/MART-1 analog (ELAGIGILTV) were used in combination with phenotypical analysis for different T-cell subsets including naive T cells, effector T cells, "true memory" T cells and "memory effector" T cells, based on CD45RA/RO and CCR7-expression. At least in a single patient, T cells binding to the AAGIGILTV epitope were detected in naive, precursor (CD45RA+/CCR7+) CD8+ T cells, and CD8+ T cells binding to the analog ELAGIGILTV peptide were identified in the terminally differentiated (CD45RA+/CCR7-) T-cell subset. Molecular and functional analysis of tetramer-binding T cells revealed that the T-cell receptor (TCR) repertoire was oligo/polyclonal in AAGIGILTV-reactive T cells, but different and restricted to a few TCR clonotypes in ELAGIGILTV-reactive T cells prior to vaccination. The TCR repertoire reactive with Melan-A/MART-1 peptide epitopes was broadened during vaccination and exhibited a different profile of cytokine release after specific stimulation: tetramer-binding T cells from 2/3 patients secreted granulocyte/macrophage colony-stimulating factor (GM-CSF) and interferon-gamma but not interleukin-2 (IL-2) in response to Melan-A/MART-1 peptides. In the third patient, tetramer-binding T cells secreted IL-2 exclusively. Our results show that T-cell responses to peptide vaccination consist of different T-cell subsets associated with different effector functions. Complementary analysis for TCR CDR3 and cytokine profiles may be useful to define the most effective CD8+ T-cell population induced by peptide vaccination.