gebhart/patrepeval huggingface dataset:
DIFFERENTIAL DIAGNOSIS AND MANAGEMENT OF CUSHING'S SYNDROME (1996)

The diagnosis of endogenous Cushing's syndrome requires demonstration of an increased cortisol secretion rate, best achieved by urinary free cortisol excretion determinations. In borderline or confusing cases, loss of diurnal cortisol rhythmicity, a combined dexamethasone/corticotropin releasing hormone (CRH) test, or close monitoring of the patient for a few months will be helpful in ruling out pseudo-Cushing's. Primary adrenal Cushing's syndrome can be ruled out on the basis of a normal or elevated basal and/or CRH-stimulated plasma adrenocorticotropin (ACTH) and a negative adrenal computed tomography. ACTH-dependent Cushing's syndrome can then be differentiated on the basis of a CRH test and imaging procedures. A discrete pituitary lesion on magnetic resonance imaging and a standard CRH test with results consistent with such a lesion are sufficient to proceed to transsphenoidal surgery. If no discrete pituitary lesion is present, or if the CRH test is equivocal, bilateral simultaneous inferior petrosal sinus sampling with CRH administration is necessary to distinguish between a pituitary and an ectopic source. Surgery is the treatment of choice for all types of Cushing's syndrome. In the few cases in which transsphenoidal surgery fails or the disease recurs, repeat transsphenoidal surgery, or radiation therapy in association with mitotane treatment, is a reasonable alternative. Bilateral adrenalectomy effectively cures hypercortisolism if resection of the ACTH-secreting tumor is unsuccessful and radiation/medical therapy fails.
Stereoselective epoxidation of the last double bond of polyunsaturated fatty acids by human cytochromes P450 (2009)

Cytochromes P450 (CYPs) metabolize polyunsaturated long-chain fatty acids (PUFA-LC) to several classes of oxygenated metabolites. Through use of human recombinant CYPs, we recently showed that CYP1A1, -2C19, -2D6, -2E1, and -3A4 are mainly hydroxylases, whereas CYP1A2, -2C8, -2C9, and -2J2 are mainly epoxygenases of arachidonic acid (AA), eicosapentaenoic acid (EPA), and docosahexaenoic acid (DHA), respectively. It is worth noting that the last double bond of these PUFAs, i.e., omega6 in AA or omega3 in EPA and DHA, respectively, was preferentially epoxidized. In this study, we have characterized the stereoselectivity of this epoxidation reaction by comparison with the PUFA-LC epoxide stereoisomers obtained from the enantioselective bacterial CYP102A1 F87V. The stereoselectivity of the epoxidation of the last olefin of AA (omega6), EPA (omega3), or DHA (omega3) differed between the CYP isoforms but was similar for EPA and DHA. These data give additional insight into the PUFA-LC epoxide enantiomers generated by the hepatic CYPs.
Progressive multifocal leukoencephalopathy: A national estimate of frequency in systemic lupus erythematosus and other rheumatic diseases (2009)

This study was confined to hospitalized patients with rheumatic diseases, and it was also limited by the lack of information regarding immunosuppressive therapy. Nevertheless, the findings suggest that, although rare overall, PML occurs more commonly in SLE than in other rheumatic diseases.
Constitutive and Regulated Secretion of Proteins (1987)

SORTING 257 CYTOSKELETON INVOLVEMENT WITH PROTEIN SECRETION 266 SECRETION IN EPITHELIAL CELLS .... 277 RECYCLING OF THE SECRETORY VESICLE MEMBRANE ..... . . 281
Rational design and rapid screening of antisense oligonucleotides for prokaryotic gene modulation (2006)

Antisense oligodeoxynucleotides (oligos) are widely used for functional studies of both prokaryotic and eukaryotic genes. However, the identification of effective target sites is a major issue in antisense applications. Here, we study a number of thermodynamic and structural parameters that may affect the potency of antisense inhibition. We develop a cell-free assay for rapid oligo screening. This assay is used for measuring the expression of Escherichia coli lacZ, the antisense target for experimental testing and validation. Based on a training set of 18 oligos, we found that structural accessibility predicted by local folding of the target mRNA is the most important predictor for antisense activity. This finding was further confirmed by a direct validation study. In this study, a set of 10 oligos was designed to target accessible sites, and another set of 10 oligos was selected to target inaccessible sites. Seven of the 10 oligos for accessible sites were found to be effective (>50% inhibition), but none of the oligos for inaccessible sites was effective. The difference in the antisense activity between the two sets of oligos was statistically significant. We also found that the predictability of antisense activity by target accessibility was greatly improved for oligos targeted to the regions upstream of the end of the active domain for beta-galactosidase, the protein encoded by lacZ. The combination of the structure-based antisense design and extension of the lacZ assay to include gene fusions will be applicable to high-throughput gene functional screening, and to the identification of new drug targets in pathogenic microbes. Design tools are available through the Sfold Web server at http://sfold.wadsworth.org.
Poly(dimethylsiloxane) Oil Absorbent with a Three-Dimensionally Interconnected Porous Structure and Swellable Skeleton (2013)

Cleanup of oil spills is a worldwide challenge to prevent serious environmental pollution. A new kind of poly(dimethylsiloxane) (PDMS) oil absorbent with high absorption capacity and excellent reusability was prepared and used for oil/water separation. The preparation process of PDMS oil absorbents involves direct curing of a PDMS prepolymer in a p-xylene solution in the presence of commercial sugar particles, which is simple and economic. PDMS oil absorbents have interconnected pores and a swellable skeleton, combining the advantages of porous materials and gels. Absorption capacities of PDMS oil absorbents are 4-34 g/g for various oils and organic solvents, which are 3 times that reported previously. Owing to their hydrophobicity and oleophilicity, the as-obtained PDMS oil absorbents can selectively collect oils or organic solvents from water. The absorption process can be finished within tens of seconds. Furthermore, the absorbed oils or organic solvents can be recovered by compressing the oil absorbents, and after 20 absorbing/recovering cycles, PDMS oil absorbents show little loss of their absorption capacities and own weights.
The Human Ribosomal Protein Genes: Sequencing and Comparative Analysis of 73 Genes (2002)

The ribosome, as a catalyst for protein synthesis, is universal and essential for all organisms. Here we describe the structure of the genes encoding human ribosomal proteins (RPs) and compare this class of genes among several eukaryotes. Using genomic and full-length cDNA sequences, we characterized 73 RP genes and found that (1) transcription starts at a C residue within a characteristic oligopyrimidine tract; (2) the promoter region is GC rich, but often has a TATA box or similar sequence element; (3) the genes are small (4.4 kb), but have as many as 5.6 exons on average; (4) the initiator ATG is in the first or second exon and is within plus minus 5 bp of the first intron boundaries in about half of cases; and (5) 5'- and 3'-UTRs are significantly smaller (42 bp and 56 bp, respectively) than the genome average. Comparison of RP genes from humans, Drosophila melanogaster, Caenorhabditis elegans, and Saccharomyces cerevisiae revealed the coding sequences to be highly conserved (63% homology on average), although gene size and the number of exons vary. The positions of the introns are also conserved among these species as follows: 44% of human introns are present at the same position in either D. melanogaster or C. elegans, suggesting RP genes are highly suitable for studying the evolution of introns.
A Muscle-Reflex Model That Encodes Principles of Legged Mechanics Produces Human Walking Dynamics and Muscle Activities (2010)

While neuroscientists identify increasingly complex neural circuits that control animal and human gait, biomechanists find that locomotion requires little control if principles of legged mechanics are heeded that shape and exploit the dynamics of legged systems. Here, we show that muscle reflexes could be vital to link these two observations. We develop a model of human locomotion that is controlled by muscle reflexes which encode principles of legged mechanics. Equipped with this reflex control, we find this model to stabilize into a walking gait from its dynamic interplay with the ground, reproduce human walking dynamics and leg kinematics, tolerate ground disturbances, and adapt to slopes without parameter interventions. In addition, we find this model to predict some individual muscle activation patterns known from walking experiments. The results suggest not only that the interplay between mechanics and motor control is essential to human locomotion, but also that human motor output could for some muscles be dominated by neural circuits that encode principles of legged mechanics.
Bioelectrical impedance changes in regional extracellular fluid alterations. (1997)

The purpose of this study was to determine whether changes in bioelectrical impedance (BI) can reveal regional extracellular fluid (ECF) alterations. ECF changes were induced by holding various arm positions for ten minutes, and they were evaluated through the measurement of BI in eight normal adult subjects. A low frequency current (100 Hz, 0.50 mA) was applied using an electromyography machine through two current electrodes, and the voltage signals were recorded by two amplitude electrodes. The corresponding BI was calculated by Ohm's law, resistance = voltage/current (R = V/I). There was no significant difference between BI and time interval, but between BI and arm position (two-way ANOVA with replicate, p = 0.954, p < 0.001). BI has a negative correlation with wrist circumference. These results show that this experimental method can be used as reflection of ECF changes and that both position and wrist circumference are major factors for BI in the upper extremity.
Mobile Internet navigation system (2003)

This paper presents a mobile Internet navigation system (MINS) which can provide traffic-condition acquisition and monitoring convenience for mobile phone users by using the wireless application protocol (WAP) format. This system operates in two ways. Firstly, mobile phone users can access the network to request road traffic information from the database of the server. This feature is useful to a user in planning the optimum route to a destination. Secondly, the user can monitor real time traffic information on the screen of the mobile phone. The traffic information includes quantity of cars for both main roads and their branch roads. These data are collected from sensors at all locations and are relayed to the client's computer by the traffic controller via the Internet and are stored at the database in the server. This system enables mobile phone users to acquire real time traffic condition data from the server for deciding the optimum road route in their travels.
Complementarity-Determining Region 1 Sequence Requirements Drive Limited Vα Usage in Response to Influenza Hemagglutinin 307–319 Peptide (2002)

We have developed a T cell activation-based system that allows for the selection of TCRs with defined peptide/MHC specificities from libraries in which complementarity-determining region (CDR) sequences have been randomized by in vitro mutagenesis. Using this system, we have explored the sequence requirements for CDR1 and CDR2 of the TCR alpha-chain in a human T cell response characterized by restricted Valpha and Vbeta usage. Libraries of T cells expressing receptors built on the framework of a TCR specific for the influenza virus peptide hemagglutinin 307-319 presented by HLA-DR4, but with random sequences inserted at CDR1alpha or CDR2alpha, were selected for response to the same peptide/MHC ligand. A wide variety of CDR2alpha sequences were found to be permissive for recognition. Indeed, >25% of T cell clones chosen at random displayed a significant response. In contrast, a similar challenge of a randomized CDR1alpha library yielded only the parental sequence, and then only after multiple rounds of selection. T cell clones cross-reactive on closely related HLA alleles (subtypes of DR4) could be isolated from randomized libraries, but not clones restricted by more distantly related alleles such as HLA-DR1. These results indicate that, in the context of this T cell response, the structural requirements for recognition at CDR1alpha are significantly more restricted than at CDR2alpha. This system for mutation and selection of TCRs in vitro may be of use in engineering T cells with defined specificities for therapeutic applications.
A prototype on RFID and sensor networks for elder healthcare (2005)

Radio Frequency Identification (RFID) and sensor networks are both wireless technologies that provide limitless future potentials. While the industry has witnessed rapid growth in developing and applying RFID technology, and the network research community has devoted tremendous efforts in sensor networks, these two communities would benefit greatly by learning from each other. In pursuing this effect, a project utilizing and integrating both technologies is described. The goal is to build an in-home elder healthcare system that monitors patients' medication in take. This would help addressing the challenge of a growing aging population.
High-resolution OCDR for testing integrated-optical waveguides: dispersion-corrupted experimental data corrected by a numerical algorithm (1991)

A numerical algorithm is presented and applied to dispersion-corrupted experimental data taken by coherence domain reflectometric (OCDR) measurements. It results in a retrieval of micrometer resolution and an enhanced dynamic range. High-resolution OCDR measurements may be seriously impaired by dispersion effects in the waveguides under test and rugged source spectra. In the investigation (Ti:LiNbO/sub 3/ single-mode waveguide, 16 mm long; superluminescent diode source at lambda /sub 0/=820 nm) the spatial resolution progressively deteriorates along the waveguide by about one order of magnitude (from 6 to 60 mu m). The algorithm was applied to the experimental data and successfully removed the dispersive broadening of the signatures.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Discrimination of Bacteria and Bacteriophages by Raman Spectroscopy and Surface-Enhanced Raman Spectroscopy (2007)

Detection of pathogenic organisms in the environment presents several challenges due to the high cost and long times typically required for identification and quantification. Polymerase chain reaction (PCR) based methods are often hindered by the presence of polymerase inhibiting compounds and so direct methods of quantification that do not require enrichment or amplification are being sought. This work presents an analysis of pathogen detection using Raman spectroscopy to identify and quantify microorganisms without drying. Confocal Raman measurements of the bacterium Escherichia coli and of two bacteriophages, MS2 and PRD1, were analyzed for characteristic peaks and to estimate detection limits using traditional Raman and surface-enhanced Raman spectroscopy (SERS). MS2, PRD1, and E. coli produced differentiable Raman spectra with approximate detection limits for PRD1 and E. coli of 10(9) pfu/mL and 10(6) cells/mL, respectively. These high detection concentration limits are partly due to the small sampling volume of the confocal system but translate to quantification of as little as 100 bacteriophages to generate a reliable spectral signal. SERS increased signal intensity 10(3) fold and presented peaks that were visible using 2-second acquisitions; however, peak locations and intensities were variable, as typical with SERS. These results demonstrate that Raman spectroscopy and SERS have potential as a pathogen monitoring platform.
Performance Enhancement in Physical Medicine and Rehabilitation (1992)

Performance enhancement or mental practice is the "symbolic rehearsal of a physical activity without any gross muscular movements" to facilitate skill acquisition and to increase performance in the production of that physical activity. Performance-enhancement interventions have been well known in the area of sports psychology and medicine. However, clinical applications in physical medicine and rehabilitation have not flourished to the same extent, though the demand for improved physical performance and the acquisition of various motor skills are as important. In this paper I will describe how hypnosis can potentiate mental practice, present a model of mental practice to enhance performance, and describe how to help patients access an ideal performance state of consciousness.
Free radicals scavenging action and anti-enzyme activities of procyanidines from Vitis vinifera. A mechanism for their capillary protective action. (1994)

The scavenging by procyanidines (polyphenol oligomers from Vitis vinifera seeds, CAS 85594-37-2) of reactive oxygen species (ROS) involved in the onset (HO degrees) and the maintenance of microvascular injury (lipid radicals R degrees, RO degrees, ROO degrees) has been studied in phosphatidylcholine liposomes (PCL), using two different models of free radical generation: a) iron-promoted and b) ultrasound-induced lipid peroxidation. In a) lipid peroxidation was assessed by determination of thiobarbituric acid-reactive substances (TBARS); in b) by determination of conjugated dienes, formation of breakdown carbonyl products (as 2,4-dinitrophenylhydrazones) and loss of native phosphatidylcholine. In the iron-promoted (Fenton-driven) model, procyanidines had a remarkable, dose-dependent antilipoperoxidant activity (IC50 = 2.5 mumol/l), more than one order of magnitude greater than that of the monomeric unit catechin (IC50 = 50 mumol/l), activity which is due, at least in part, to their metal-chelating properties. In the more specific model b), which discriminates between the initiator (hydroxyl radical from water sonolysis) and the propagator species of lipid peroxidation (the peroxyl radical, from autooxidation of C-centered radicals), procyanidines are highly effective in preventing conjugated diene formation in both the induction (IC50 = 0.1 mumol/l) and propagation (IC50 = 0.05 mumol/l) phases (the scavenging effect of alpha-tocopherol was weaker, with IC50 of 1.5 and 1.25 mumol/l). In addition, procyanidines at 0.5 mumol/l markedly delayed the onset of the breakdown phase (48 h), totally inhibiting during this time the formation of degradation products (the lag-time induced by alpha-tocopherol was only of 24 h at 10 mumol/l concentration). The HO degrees entrapping capacity of these compounds was further confirmed by UV studies and by electron spin resonance (ESR) spectroscopy, using DMPO as spin trapper: procyanidines markedly reduced, in a dose-dependent fashion, the signal intensity of the DMPO-OH radical spin adduct (100% inhibition at 40 mumol/l). The results of the second part of this study show that procyanidines, in addition to free radical scavenging action, strongly and non-competitively, inhibit xanthine oxidase activity, the enzyme which triggers the oxy radical cascade (IC50 = 2.4 mumol/l). In addition procyanidines non-competitively inhibit the activities of the proteolytic enzymes collagenase (IC50 = 38 mumol/l) and elastase (IC50 = 4.24 mumol/l) and of the glycosidases hyaluronidase and beta-glucuronidase (IC50 = 80 mumol/l and 1.1 mumol/l), involved in the turnover of the main structural components of the extravascular matrix collagen, elastin and hyaluronic acid.(ABSTRACT TRUNCATED AT 400 WORDS)
Diphtheria Toxin and Related Proteins (1973)

The kinetics of diphtheria toxin production by a mutant of the C7(β) strain of Corynebacterium diphtheriae has been studied. This strain, C7-262(β), produces unusually low yields of toxin, although its β-prophage carries a normal tox gene. The isolation of five strains of β-phage, each carrying a different mutation of its tox gene, is described. Lysogens carrying these mutants as prophages produce altered extracellular proteins (cross-reacting materials), serologically related to toxin, each of which has been isolated in purified form. Two of them, cross-reacting materials 30 and 45, are of lower molecular weight than toxin. Although Fragment A, which contains the enzymically active NH2-terminal region of the molecule, isolated from these mutant proteins could not be distinguished from Fragment A derived from toxin itself, cross-reacting materials 30 and 45 are nontoxic for susceptible animals. The other three mutant proteins are serologically indistinguishable from wild type toxin. Cross-reactive materials 197 and 228 are nontoxic because of amino acid substitutions in the Fragment A portion of the molecule causing loss of enzymic activity. Cross-reacting material 176 contains an altered Fragment A which retains about 8 to 10% of the enzymic activity of the wild type. In vivo, however, cross-reacting material 176 is only 0.2 to 0.4% as toxic as intact toxin.
Pharmacogenetics: an opportunity for a safer and more efficient pharmacotherapy (2001)

Drug treatment is in many cases ineffective. Besides patients who do not respond to the treatment despite receiving expensive drugs, adverse drug reactions (ADRs) as a consequence of the treatment, is estimated to cost the US society 100 billion USD and over 100,000 deaths per year. Pharmacogenetics is the discipline which takes the patient's genetic information of drug transporters, drug metabolizing enzymes and drug receptors into account to allow for an individualized drug therapy leading to optimal choice and dose of the drugs in question. It is believed that much cost for the society can be saved in this manner. Many drug transporters are polymorphic. In addition, the majority of phase I and phase II dependent drug metabolism is carried out by polymorphic enzymes which can cause abolished, quantitatively or qualitatively altered or enhanced drug metabolism. Stable duplication, multiduplication or amplification of active genes, most likely in response to dietary components that have resulted in a selection of alleles with multiple noninducible genes, has been described. Several examples exist where subjects carrying certain alleles suffer from a lack of drug efficacy because of ultrarapid metabolism caused by multiple genes or by induction of gene expression, or, alternatively, adverse effects from the drug treatment as a result of the presence of defective alleles. The information about the role of polymorphic drug receptors for efficiency of drug therapy is more scarce, although promising examples are seen in drug treatment of asthma where the efficiency can be severely enhanced by predictive genotyping of the drug targets. In addition, certain polymorphic genes can be used as markers for optimization of the drug therapy. It is likely that predictive genotyping is of benefit in 10-20% of drug treatment and thereby allows for prevention of causalities as a cause of ADRs and thus improves the health for a significant fraction of the patients. In 15-40% of the cases, the penetrance of genetic polymorphism is of less importance because of the polygenic influence on the outcome of drug treatment and in 50% of the cases, pharmacogenetics would be without influence because of other more important physiological and environmental factors. In the present contribution an overview about our present knowledge how polymorphic genes can influence the drug efficacy is presented. Some emphasis will be given to different forms of cytochrome P450 which are of importance for drug metabolism.