gebhart/patrepeval huggingface dataset:
Polarity in Archaeal Operon Transcription in Thermococcus kodakaraensis (2008)

An in vivo archaeal gene reporter system has been established based on TK1761, a gene that encodes a nonessential beta-glycosidase in Thermococcus kodakaraensis. Following the introduction of nonsense codons into promoter-proximal genes, polarity in operon expression in this archaeon has been established by both microarray hybridization assays and a reporter gene expression system.
Solution Casting and Transfer Printing Single-Walled Carbon Nanotube Films (2004)

This paper presents methods for solution casting and transfer printing collections of individual single-walled carbon nanotubes (SWNTs) onto a wide range of substrates, including plastic sheets. The deposition involves introduction of a solvent that removes surfactant from a suspension of SWNTs as it is applied to a substrate. The subsequent controlled flocculation (cF) produces films of SWNTs with densities that can be varied between a few tubes per square micron to thick multilayers in a single deposition step and with orientation determined by the direction of solution flow. High-resolution rubber stamps inked in this manner can be used to print patterns of tubes with geometries defined by the relief structure on the surface of the stamp. Thin film transistors fabricated with these techniques demonstrate their potential use in flexible “macroelectronic” systems.
NorA plasmid resistance to fluoroquinolones: role of copy number and norA frameshift mutations (1996)

Staphylococcus aureus NorA protein is a transmembrane multidrug efflux pump that confers low-level resistance to hydrophilic fluoroquinolones. The norA gene promoter is active in Escherichia coli HB101. We have examined the genetic basis of norA-mediated resistance in E. coli by introducing a wild-type norA gene into HB101 in plasmid pCL1921, pBR322, or pUC18 exhibiting copy numbers that spanned a 22-fold range. Increased ciprofloxacin resistance correlated with norA transcript levels seen by Northern (RNA) analysis. Thus, contrary to some reports, a wild-type norA gene confers fluoroquinolone resistance in E. coli in a copy-number-dependent fashion and does not require mutational activation. Interestingly, a multicopy pUC19norA derivative gave transformants exhibiting a range of resistance phenotypes. The norA gene of one transformant carried a single base deletion (ATACAAT to AACAAT; the deleted base is underlined) in the putative--10 Pribnow box resulting in a promoter down-regulatory mutation; a second plasmid had acquired a frameshift producing a null mutation at codon 112. These mutations override the dual resistance-growth-inhibitory phenotype of high-copy-number norA plasmids. The results have implications for using the standard E. coli HB101 system to assess NorA function and potentially for plasmid-borne transmission of norA-mediated drug resistance.
Design of Sequence-specific Agents: Lexitropsins (1993)

The guiding principle behind efforts to develop DNA sequence-specific agents is that greater biological response may be achieved for a given dose compared with a sequence-neutral agent, thereby reducing toxic side-effects. A related goal is the selective suppression of transcription from particular gene sequences (Stephenson and Zamecnik, 1978; Izant and Weintraub, 1984).
A Maximum Entropy Model for Part-Of-Speech Tagging (1996)

This paper presents a statistical model which trains from a corpus annotated with Part-OfSpeech tags and assigns them to previously unseen text with state-of-the-art accuracy(96.6%). The model can be classified as a Maximum Entropy model and simultaneously uses many contextual &amp;quot;features&amp;quot; to predict the POS tag. Furthermore, this paper demonstrates the use of specialized features to model difficult tagging decisions, discusses the corpus consistency problems discovered during the implementation of these features, and proposes a training strategy that mitigates these problems.
Simulation of Primary Haemostasis in vitro (1985)

Primary haemostasis was simulated in vitro under standardized geometrical, rheological and biochemical conditions. The system was based on the hypothesis that adenine nucleotides, especially adenosine 5'-diphosphate, released from injured vessel wall cells play an important role for the initial platelet aggregation following lesion of small vessels. The device allows the reproducible measurement of in vitro bleeding time and volume in small samples of whole blood.
Heat Loss Through the Glabrous Skin Surfaces of Heavily Insulated, Heat-Stressed Individuals (2009)

Insulation reduces heat exchange between a body and the environment. Glabrous (nonhairy) skin surfaces (palms of the hands, soles of the feet, face, and ears) constitute a small percentage of total body surface area but contain specialized vascular structures that facilitate heat loss. We have previously reported that cooling the glabrous skin surfaces is effective in alleviating heat stress and that the application of local subatmospheric pressure enhances the effect. In this paper, we compare the effects of cooling multiple glabrous skin surfaces with and without vacuum on thermal recovery in heavily insulated heat-stressed individuals. Esophageal temperatures (T(es)) and heart rates were monitored throughout the trials. Water loss was determined from pre- and post-trial nude weights. Treadmill exercise (5.6 km/h, 9-16% slope, and 25-45 min duration) in a hot environment (41.5 degrees C, 20-30% relative humidity) while wearing insulating pants and jackets was used to induce heat stress (T(es)>or=39 degrees C). For postexercise recovery, the subjects donned additional insulation (a balaclava, winter gloves, and impermeable boot covers) and rested in the hot environment for 60 min. Postexercise cooling treatments included control (no cooling) or the application of a 10 degrees C closed water circulating system to (a) the hand(s) with or without application of a local subatmospheric pressure, (b) the face, (c) the feet, or (d) multiple glabrous skin regions. Following exercise induction of heat stress in heavily insulated subjects, the rate of recovery of T(es) was 0.4+/-0.2 degrees C/h(n=12), but with application of cooling to one hand, the rate was 0.8+/-0.3 degrees C/h(n=12), and with one hand cooling with subatmospheric pressure, the rate was 1.0+/-0.2 degrees C/h(n=12). Cooling alone yielded two responses, one resembling that of cooling with subatmospheric pressure (n=8) and one resembling that of no cooling (n=4). The effect of treating multiple surfaces was additive (no cooling, DeltaT(es)=-0.4+/-0.2 degrees C; one hand, -0.9+/-0.3 degrees C; face, -1.0+/-0.3 degrees C; two hands, -1.3+/-0.1 degrees C; two feet, -1.3+/-0.3 degrees C; and face, feet, and hands, -1.6+/-0.2 degrees C). Cooling treatments had a similar effect on water loss and final resting heart rate. In heat-stressed resting subjects, cooling the glabrous skin regions was effective in lowering T(es). Under this protocol, the application of local subatmospheric pressure did not significantly increase heat transfer per se but, presumably, increased the likelihood of an effect.
HOME AUTOMATION SYSTEM (2025)

Voice-controlled home automation and environ-mental sensors increase convenience, energy savings, and user comfort.The system combines voice recognition technology to manage lighting and a temperature sensor to control fan operation.The light is turned on or off by voice commands, while the fan is automatically switched on when the temperature goes beyond a set limit.The implementation utilizes micro-controllers, IoT-based communication, and smart sensors to enable real-time automation.This paper explores the system's architecture, working principles, and benefits, demonstrating how intelligent automation can improve energy efficiency and user experience in modern smart homes.
Characterization and Platelet Inhibitory Activity of Bitistatin, a Potent Arginine-Glycine-Aspartic Acid-Containing Peptide from the Venom of the Viper Bitis arietans (1989)

A platelet aggregation inhibitory protein, bitistatin, was isolated from the venom of the puff adder Bitis arietans. This protein is a single-chain peptide containing 83 amino acids and 7 disulfide bonds. Bitistatin contains the sequence arginine-glycine-aspartic acid and shows considerable homology to two previously described snake venom platelet aggregation inhibitors, trigramin and echistatin. Bitistatin inhibited human and canine platelet aggregation initiated by 10 microM ADP in vitro with IC50 values of 237 +/- 13 and 28 +/- 3 nM, respectively. In order to assess the antithrombotic potential of bitistatin, a canine model of platelet-dependent coronary thrombus formation was utilized. Injection of bitistatin at 10-100 micrograms/kg (0.7-7 nmol/kg, intravenously (i.v.] resulted in dose-dependent inhibition of both platelet aggregation ex vivo and platelet-dependent cyclical flow reductions. The effective dose to inhibit cyclical flow reductions was 30 micrograms/kg, i.v. A higher dose of bitistatin (100 micrograms/kg, i.v.) inhibited cyclical flow reductions for 160 +/- 29 min as well as attenuated ex vivo platelet aggregation. Bitistatin at 100 micrograms/kg, i.v. prolonged the bleeding time 4 x normal at 15 min post-administration but returned to normal at 3 h. Thus, in a canine model of in vivo platelet aggregation, bitistatin is an effective antiplatelet agent to inhibit periodic cyclical flow reductions. Bitistatin also exhibits reversible effects of ex vivo platelet aggregation as well as on bleeding time.
Boron-Containing Heterocycles:  Syntheses, Structures, and Properties of Benzoborauracils and a Benzoborauracil Nucleoside (1999)

Benzo-fused boron-containing heterocycles (benzoborauracils), 1-hydroxy-1H-2,4,1-benzodiazaborin-3-one (3a), 1-hydroxy-2-methyl-1H-2,4,1-benzodiazaborin-3-one (3b), and 1-hydroxy-2-phenyl-1H-2,4,1-benzodiazaborin-3-one (3c) were synthesized, and their structures were established on the basis of 1H, 13C, and 11B NMR spectroscopies, mass spectrometry, and microelemental analyses. The structures of compounds 3b and 3c were unambiguously confirmed by X-ray crystallographic analyses. 11B NMR spectral analyses of the methanolic solutions of benzoborauracils 3a−c confirmed the formation of the corresponding bis-methanol adducts 13a−c. The structure of the N-Ph bis-methanol adduct 13c was confirmed by X-ray crystallography. The stabilities of these bis-methanol adducts depend on the substituent at the N2 position of 3a−c. The bis-methanol adducts are readily reconverted to the corresponding benzoborauracils upon removal of methanol. The first stable benzoborauracil nucleoside, 4-[5-O-(tert-butyldimethylsilyl)-2,3-O-disopropylidene-α-d-ribofuranosyl]-1-hydroxy-2-methyl-1H-2,4,1-benzodiazaborin-3-one (25) was prepared in two steps by treatment of 2-aminophenylboronic acid with 5-O-(tert-butyldimethylsilyl)-2,3-O-diisopropylidene-d-ribofuranose followed by its reaction with methylisocyanate.
Reducing initial latency in a multimedia storage system (2002)

A multimedia server delivers presentations (e.g., videos, movies, games), providing high bandwidth and continuous real-time delivery. We present techniques for reducing the initial latency of presentations, i.e., for reducing the time between the arrival of a request and the start of the presentation. Traditionally, initial latency has not received much attention. This is because one major application of multimedia servers is "movies on demand" where a delay of a few minutes before a new multi-hour movie starts is acceptable. However, latency reduction is important in interactive applications such as video games and browsing of multimedia documents. Various latency reduction schemes are proposed and analyzed, and their performance compared. We show that our techniques can significantly reduce (almost eliminate in some cases) initial latency without adversely affecting throughput. Moreover, a novel on-disk partial data replication scheme that we propose proves to be far more cost effective than any other previous attempts at reducing initial latency.
DNA Origami as a DNA Repair Nanosensor at the Single‐Molecule Level (2013)

The folding of DNA molecules by DNA origami is used in a nanosensor to analyze enzymatic DNA repair activity of hAGT. The method uses conformational changes that condition α-thrombin interaction with DNA aptamers, and illustrates the use of DNA origami as a proteinrecognition biosensor.
An Association between the Risk of Cancer and Mutations in the HRAS1 Minisatellite Locus (1993)

Mutant alleles of the HRAS1 minisatellite locus represent a major risk factor for common types of cancer. Although the relative risk associated with the presence of one rare allele is moderate, the aggregate prevalence of one rare allele is moderate, the aggregate prevalence of this class of mutant alleles implies an extremely important attributable risk: 1 in 11 cancers of the breast, colorectum, and bladder.
Analysis of wood vacuum pyrolysis solid residues by diffuse reflectance infrared Fourier transform spectrometry (1989)

Vacuum pyrolysis of wood furnishes high yields of oils which are a source of liquid fuels and chemicals. Wood charcoal is a solid residual by-product. Solid residues produced at 200, 263, 327, 363, 401, and 448 °C in a Process Development Unit were analyzed using wet chemical methods and chromatography and infrared spectrometry.A Diffuse Reflectance Infrared Fourier Transform (DRIFT) study of the solid residues which contained various proportions of organic polymeric constituents consisting of unconverted lignin, polysaccharides, and recondensed materials was performed. Polysaccharide contents were determined by hydrolysis in trifluoroacetic acid followed by derivatization and gas-chromatographic analysis. The DRIFT study showed that the solid residue retained its wood nature below 263 °C. Significant degradation, decomposition, and recondensation reactions occurred with increasing temperature and coal-like nature prevailed above 327 °C. Occurrence of a new band at 1700 cm −1 in samples produced at 363 °C and above was found to be indicative of a new carbonyl group, presumably in recondensed material.A series of equations were also developed to predict semiquantitatively Klason residue, glucose and xylose content of the solid residues. The usefulness of each equation is discussed in the article. Keywords: wood, vacuum pyrolysis, solid residue, DRIFT, spectrometry.
MONITORING THE RESPONSE TO TYROSINE KINASE INHIBITOR (TKI) TREATMENT IN CHRONIC MYELOID LEUKEMIA (CML) (2013)

The aim of oral tyrosine kinase inhibitor (TKI) treatment in chronic myeloid leukemia (CML) is to get ideal hematological, cytogenetic, molecular responses at the critical time points. The depth of the response obtained with TKI and the time to achieve this response are both important in predicting the prognosis in patients with CML. The high efficacy of the TKI treatment of CML has prompted the need for accurate methods to monitor response at levels below the landmark of CCyR. Quantification of BCR-ABL transcripts has proven to be the most sensitive method available and has shown prognostic impact with regard to progression-free survival. European LeukemiaNet (ELN) molecular program harmonized the reporting of results according to the IS (International harmonization of Scale) in Europe. The aim of this review is to outline monitoring the response to optimal TKI treatment based on the ELN CML 2013 recommendations from the clinical point of view as a physician. Careful cytogenetic and molecular monitoring could help to select the most convenient TKI drug and to optimize TKI treatment. Excessive monitoring may have an economic cost, but failure to optimize TKI treatment may result in CML disease acceleration and death.
Current and Emerging Therapy for Celiac Disease (2014)

At present, strict and lifelong gluten-free diet is the only effective treatment for celiac disease. Even small amounts of gluten (50 mg/day) can be immunogenic; therefore all food and food items and drugs that contain gluten and its derivatives must be eliminated completely from the diet. While prescribing gluten-free diet is easy; the key to the success is the dietary counseling by a nutrition specialist and maintenance of adherence to GFD by the patient. In recent times, a number of targets to halt the process of immunological injury have been explored to find out alternative treatment for celiac disease. These targets include exploration of ancient wheat if they are less immunogenic, intra-luminal digestion of gluten using prolylendopeptidases, pretreatment of whole gluten with bacterial-derived peptidase before ingestion; prevention of passage of immunogenic peptides through the tight junctions such as zonulin antagonists, Blocking of HLA-DQ2 to prevent binding of immunogenic peptides, inhibition of transglutaminase 2, immune-modulation, and induction of tolerance to gluten using gluten tolerizing vaccines, use of gluten-sequestering polymers, use of anti-inflammatory drugs (glucocorticoids, budesonides) and anti-cytokines such as anti TNF-α, and anti-interleukin-15. While many of these targets are still in the pre-clinical phase, some of them including zonulin antagonist and endopeptidases have already reached phase II and phase III clinical trials. Furthermore, while these targets appear very exciting; they at best are likely to be used as adjunctive therapy rather than a complete replacement for gluten-free diet.
A ‘New’ Congenital Haemorrhagic Condition due to the Presence of an Abnormal Factor X (Factor X Friuli): Study of a Large Kindred (1970)

S ummary Three related patients are presented who show a congenital coagulation disorder with laboratory features intermediate between classical factor‐VII and factor‐X deficiencies. A woman and two men had suffered from bleeding since early childhood, with epistaxis, bleeding from the gums, post‐traumatic haemarthroses, bleeding after tooth extractions and other surgical procedures. Investigation demonstrated a prolonged prothrombin time, prolonged partial thromboplastin time, abnormal prothrombin consumption and abnormal thromboplastin generation corrected by normal serum. Platelet and vascular tests were normal and no hyperfibrinolysis was found. Factors I, II, V, VII, IX, XI and XII were within normal limits in all three patients. Mutual correction was demonstrated with a known factor‐VII‐deficient plasma but not with Stuart (X‐deficient) plasma. Factor‐X assay yielded low (4–9%) levels using tissue whole thromboplastin or tissue partial thromboplastin; but the results were normal with a Stypven‐cephalin mixture. In agreement with these results, the Stypven‐cephalin clotting time, the Stypven clotting time and the factor II + factor X level using a Stypven‐cephalin mixture were normal, ‘correction’ being attributable to the Russell's Viper venom. These results were thought to indicate an abnormal factor X rather than a real deficiency. The presence of abnormal factor X was demonstrated by the antibody neutralization technique and by the immunodiffusion studies. The defect, like classical factor X deficiency, is transmitted as an autosomal incompletely recessive trait. The heterozygote population has factor‐X levels varying from 32% to 55% of normal and are usually asymptomatic. The term ‘Factor X Friuli’ is proposed for the abnormality, due to a locally common mutant gene.
Optimal Feedback Communication Via Posterior Matching (2011)

In this paper, we introduce a fundamental principle for optimal communication over general memoryless channels in the presence of noiseless feedback, termed posterior matching. Using this principle, we devise a (simple, sequential) generic feedback transmission scheme suitable for a large class of memoryless channels and input distributions, achieving any rate below the corresponding mutual information. This provides a unified framework for optimal feedback communication in which the Horstein scheme (BSC) and the Schalkwijk-Kailath scheme (AWGN channel) are special cases. Thus, as a corollary, we prove that the Horstein scheme indeed attains the BSC capacity, settling a longstanding conjecture. We further provide closed form expressions for the error probability of the scheme over a range of rates, and derive the achievable rates in a mismatch setting where the scheme is designed according to the wrong channel model. Several illustrative examples of the posterior matching scheme for specific channels are given, and the corresponding error probability expressions are evaluated. The proof techniques employed utilize novel relations between information rates and contraction properties of iterated function systems.
Halothane modulation of skeletal muscle ryanodine receptors: dependence on Ca2+, Mg2+, and ATP (2008)

Malignant hyperthermia (MH) susceptibility is a genetic disorder of skeletal muscle associated with mutations in the ryanodine receptor isoform 1 (RyR1) of sarcoplasmic reticulum (SR). In MH-susceptible skeletal fibers, RyR1-mediated Ca(2+) release is highly sensitive to activation by the volatile anesthetic halothane. Indeed, studies with isolated RyR1 channels (using simple Cs(+) solutions) found that halothane selectively affects mutated but not wild-type RyR1 function. However, studies in skeletal fibers indicate that halothane can also activate wild-type RyR1-mediated Ca(2+) release. We hypothesized that endogenous RyR1 agonists (ATP, lumenal Ca(2+)) may increase RyR1 sensitivity to halothane. Consequently, we studied how these agonists affect halothane action on rabbit skeletal RyR1 reconstituted into planar lipid bilayers. We found that cytosolic ATP is required for halothane-induced activation of the skeletal RyR1. Unlike RyR1, cardiac RyR2 (much less sensitive to ATP) responded to halothane even in the absence of this agonist. ATP-dependent halothane activation of RyR1 was enhanced by cytosolic Ca(2+) (channel agonist) and counteracted by Mg(2+) (channel inhibitor). Dantrolene, a muscle relaxant used to treat MH episodes, did not affect RyR1 or RyR2 basal activity and did not interfere with halothane-induced activation. Studies with skeletal SR microsomes confirmed that halothane-induced RyR1-mediated SR Ca(2+) release is enhanced by high ATP-low Mg(2+) in the cytosol and by increased SR Ca(2+) load. Thus, physiological or pathological processes that induce changes in cellular levels of these modulators could affect RyR1 sensitivity to halothane in skeletal fibers, including the outcome of halothane-induced contracture tests used to diagnose MH susceptibility.
Effect of TEPC-183 plasmacytoma on resistance of passively or actively immunized BALB/c mice to infection with Streptococcus pneumoniae. (1984)

This study focuses on the effect of TEPC-183 (tetramethylpentadecane)-induced plasmacytoma on resistance of mice to infection with Streptococcus pneumoniae type III. Vaccination of normal or of TEPC-183-bearing mice with either a polyvalent pneumococcal vaccine (Pnu-Imune) or purified polysaccharide type III protects both against challenge with live S. pneumoniae. However, a 38-fold increase in susceptibility of the tumor-bearing mice over that of controls was observed. Immunized splenectomized mice were ten times more susceptible to infection than were immunized normal mice. However, this increased susceptibility of splenectomized mice could be overcome by passively administered antibody. In passive protection experiments, antisera obtained from normal and TEPC-183-bearing or from cyclophosphamide-treated mice were almost equally protective. A 6-fold increase of antibody (133 ng of antibody), however, was required to protect TEPC-183-bearing mice against challenge with 500 organisms, as compared with the 22 ng of antibody required to protect normal mice, indicative of defective host defense mechanisms in addition to the lower production of antibody in the TEPC-183-bearing mice. In contrast, mice bearing an equal tumor load of Sarcoma 37 behaved similarly to normal mice, showing that the increased susceptibility to infection was due to TEPC-183, a particularly immunosuppressive tumor.