gebhart/patrepeval huggingface dataset:
Single-Session Transurethral Microwave Thermotherapy for the Treatment of Benign Prostatic Obstruction* (1991)

The Prostatron device, which provides simultaneous microwave heating of the prostate and conductive cooling of the urethra, was used in 50 men with significant urethral obstruction by benign prostatic hyperplasia (BPH). The prostate was heated to 45.5°C for 55 minutes in most cases. No anesthesia or sedation was required. Of the 19 patients in acute retention before treatment, one died of disseminated renal cancer soon after treatment and three are awaiting a voiding trial. Eight men voided normally after catheter withdrawal, six of whom continue to void normally. One went into retention again after a further surgical procedure, and one had the catheter replaced for social reasons. Two other patients had catheters replaced, and seven underwent transurethral resection. All 23 patients with outflow obstruction before treatment had improvement in their symptom scores at 6 and 12 weeks. In six patients with obstruction and an abnormal bladder, one of three had a reduction in postvoiding residual volume, one of two with a low flow rate was improved, and one patient with Parkinson's disease achieved marked symptom reduction and lessened obstruction. Treatment failed in two patients because of inability to insert the applicator or technical malfunction. The only side effects were self-limited urethral bleeding and short-term obstruction apparently secondary to urethral edema. The authors suggest some roles for transurethral thermotherapy in the management of BPH.
Bisaryloxime Ethers as Potent Inhibitors of Transthyretin Amyloid Fibril Formation (2005)

Amyloid fibril formation by the plasma protein transthyretin (TTR), requiring rate-limiting tetramer dissociation and monomer misfolding, is implicated in several human diseases. Amyloidogenesis can be inhibited through native state stabilization, mediated by small molecule binding to TTR's primarily unoccupied thyroid hormone binding sites. New native state stabilizers have been discovered herein by the facile condensation of arylaldehydes with aryloxyamines affording a bisarylaldoxime ether library. Of the library's 95 compounds, 31 were active inhibitors of TTR amyloid formation in vitro. The bisaryloxime ethers selectively stabilize the native tetrameric state of TTR over the dissociative transition state under amyloidogenic conditions, leading to an increase in the dissociation activation barrier. Several bisaryloxime ethers bind selectively to TTR in human blood plasma over the plethora of other plasma proteins, a necessary attribute for efficacy in vivo. While bisarylaldoxime ethers are susceptible to degradation by N-O bond cleavage, this process is slowed by their binding to TTR. Furthermore, the degradation rate of many of the bisarylaldoxime ethers is slow relative to the half-life of plasma TTR. The bisaryloxime ether library provides valuable structure-activity relationship insight for the development of structurally analogous inhibitors with superior stability profiles, should that prove necessary.
Vitamin E and vitamin C treatment improves fibrosis in patients with nonalcoholic steatohepatitis (2003)

Forty-five patients completed 6 months of therapy without significant side effects. Vitamin treatment resulted in a statistically significant improvement in fibrosis score (p=0.002). No changes were noted in inflammation with treatment. Vitamin E and vitamin C, in the doses used in this study, were well tolerated and were effective in improving fibrosis scores in NASH patients. No improvement in necroinflammatory activity or ALT was seen with this combination of drug therapy. A larger, multicenter, longer-term trial with vitamin E and vitamin C seems to be warranted.
Smart antennas for mobile communication systems: benefits and challenges (1999)

Spatial filtering using adaptive or smart antennas has emerged as a promising technique to improve the performance of cellular mobile systems. This paper presents an overview of smart antennas in terms of key characteristics, options, challenges and benefits, in the context of current, but also with a view towards future, generation personal communication systems.
Evidence for auto-inhibition by the N terminus of hADAR2 and activation by dsRNA binding (2004)

Adenosine deaminases that act on RNA (ADARs) catalyze adenosine to inosine conversion in RNA that is largely double stranded. Human ADAR2 (hADAR2) contains two double-stranded RNA binding motifs (dsRBMs), separated by a 90-amino acid linker, and these are followed by the C-terminal catalytic domain. We assayed enzymatic activity of N-terminal deletion constructs of hADAR2 to determine the role of the dsRBMs and the intervening linker peptide. We found that a truncated protein consisting of one dsRBM and the deaminase domain was capable of deaminating a short 15-bp substrate. In contrast, full-length hADAR2 was inactive on this short substrate. In addition, we observed that the N terminus, which was deleted from the truncated protein, inhibits editing activity when added in trans. We propose that the N-terminal domain of hADAR2 contains sequences that cause auto-inhibition of the enzyme. Our results suggest activation requires binding to an RNA substrate long enough to accommodate interactions with both dsRBMs.
Hypertensive and hypotensive mice produced by the introduction and disruption of genes on the renin-angiotensin system. (1996)

We constructed in mice the chimeric renin-angiotensin cascade comprising human renin, human angiotensinogen, and the endogenous angiotensin-converting enzyme and angiotensin II (A II) receptors by crossmating separate lines of transgenic mice carrying either gene. Although hypertension did not develop in the single-gene carriers despite the observed tissue-specific expression of the transgenes, dual-gene strains exhibited a chronically sustained increase in blood pressure (BP). The systolic BP was 130 +/- 7 mmHg, which is about 30 mmHg higher than that of control mice. Administration of a selective antagonist directed at the A II receptor decreased the basal BP in both single-gene and dual-gene mice. In addition, we generated two lines of knockout mice by homologous recombination in mouse embryonic stem cells. One line consisted of angiotensionogen-deficient mice, which failed to produce angiotensinogen in the liver, resulting in the complete loss of plasma angiotensin 1. The systolic BP of the mice was 66.9 +/- 4.1 mmHg, significantly lower than that of the controls (100.4 +/- 4.4 mmHg). The second line consisted of A II-receptor type la-deficient mice, which also exhibited hypotension (24 mmHg lower than that of controls). These results demonstrated that the renin-angiotensin system plays an indispensable role in maintaining normal BP in vivo, and cannot be replaced by other hormonal and neuronal systems.
Can BACE1 Inhibition Mitigate Early Axonal Pathology in Neurological Diseases? (2013)

β-Secretase-1 (BACE1) is the rate-limiting enzyme for the genesis of amyloid-β (Aβ) peptides, the main constituents of the amyloid plaques in the brains of Alzheimer's disease (AD) patients. BACE1 is being evaluated as an anti-Aβ target for AD therapy. Recent studies indicate that BACE1 elevation is associated with axonal and presynaptic pathology during plaque development. Evidence also points to a biological role for BACE1 in axonal outgrowth and synapse formation during development. Axonal, including presynaptic, pathology exists in AD as well as many other neurological disorders such as Parkinson's disease, epilepsy, stroke, and trauma. In this review, we discuss pharmaceutical BACE1 inhibition as a therapeutic option for axonal pathogenesis, in addition to amyloid pathology. We first introduce the amyloidogenic processing of amyloid-β protein precursor and describe the normal expression pattern of the amyloidogenic proteins in the brain, with an emphasis on BACE1. We then address BACE1 elevation relative to amyloid plaque development, followed by updating recent understanding of a neurotrophic role of BACE1 in axon and synapse development. We further elaborate the occurrence of axonal pathology in some other neurological conditions. Finally, we propose pharmacological inhibition of excessive BACE1 activity as an option to mitigate early axonal pathology occurring in AD and other neurological disorders.
Catalytic Nanomotors:  Autonomous Movement of Striped Nanorods (2004)

Rod-shaped particles, 370 nm in diameter and consisting of 1 microm long Pt and Au segments, move autonomously in aqueous hydrogen peroxide solutions by catalyzing the formation of oxygen at the Pt end. In 2-3% hydrogen peroxide solution, these rods move predominantly along their axis in the direction of the Pt end at speeds of up to 10 body lengths per second. The dimensions of the rods and their speeds are similar to those of multiflagellar bacteria. The force along the rod axis, which is on the order of 10(-14) N, is generated by the oxygen concentration gradient, which in turn produces an interfacial tension force that balances the drag force at steady state. By solving the convection-diffusion equation in the frame of the moving rod, it was found that the interfacial tension force scales approximately as SR(2)gamma/muDL, where S is the area-normalized oxygen evolution rate, gamma is the liquid-vapor interfacial tension, R is the rod radius, mu is the viscosity, D is the diffusion coefficient of oxygen, and L is the length of the rod. Experiments in ethanol-water solutions confirmed that the velocity depends linearly with the product Sgamma, and scaling experiments showed a strong dependence of the velocity on R and L. The direction of motion implies that the gold surface is hydrophobic under the conditions of the experiment. Tapping-mode AFM images of rods in air-saturated water show soft features that are not apparent in images acquired in air. These features are postulated to be nanobubbles, which if present in hydrogen peroxide solutions, would account for the observed direction of motion.
Cooling and squeezing via quadratic optomechanical coupling (2010)

We explore the physics of optomechanical systems in which an optical cavity mode is coupled parametrically to the square of the position of a mechanical oscillator. We derive an effective master equation describing two-phonon cooling of the mechanical oscillator. We show that for high temperatures and weak coupling, the steady-state phonon number distribution is nonthermal (Gaussian) and that even for strong cooling the mean phonon number remains finite. Moreover, we demonstrate how to achieve mechanical squeezing by driving the cavity with two beams. Finally, we calculate the optical output and squeezing spectra. Implications for optomechanics experiments with the membrane-in-the-middle geometry or ultracold atoms in optical resonators are discussed.
Tecfidera®: an Approach for Repurposing (2014)

As a case study of patent coverage for a repurposed drug, Biogen Idec's approach for Tecfidera(®), an oral formulation of dimethyl fumarate, was analyzed. While mixtures of fumarates have been used for over 50 years to treat psoriasis, Tecifidera is approved for the treatment of relapsing-remitting multiple sclerosis. Biogen pursued claims to pharmaceutical formulations and useful doses for treating multiple sclerosis, an approach that is relevant to pharmaceutical lifecycle management in general. A survey of recent US, EP, and PCT patent applications indicate other companies are developing competing fumarate formulations. While it is possible to pursue secondary patents for compounds without composition of matter coverage, regulatory data exclusivity provides additional protection to delay competitors.
Gene therapy for thioguanine-resistant human leukemia. (1987)

The feasibility of using retroviral gene therapy to overcome drug resistance was assessed by determining the efficiency by which a retrovirus containing the human HGPRT gene could sensitize hypoxanthine-guanine phosphoribosyltransferase (HGPRT) negative human promyelocytic leukemia cells to 6-thioguanine. A single three-hour exposure at a virus to cell ratio of 6 X 2:1 restored sensitivity to 70(+/- 18)% of the clonogenic cells. The efficacy varied as a function of virus concentration and duration of viral exposure; the time allowed for integration and expression between one and five days post-infection had little effect. Cells successfully sensitized contained a proviral insert and expressed HGPRT activity that ranged from 1 to 92% of that in the wild-type cells. The mutation rate of the inserted gene varied from the same as that of the endogenous HGPRT gene to 200-fold greater in different clones. Failure of sensitization following viral exposure was associated with absence of an integrated provirus, and clonogenic cells failing to be sensitized by one virus exposure were sensitized with approximately the same efficiency by a second viral exposure. These results demonstrate the feasibility of transferring a drug sensitivity gene to a human leukemia cell line.
The three-dimensional Structure of Bovine Platelet Factor 4 at 3.0-A Resolution (1989)

Platelet factor 4 (PF4), which is released by platelets during coagulation, binds very tightly to negatively charged oligosaccharides such as heparin. To date, six other proteins are known that are homologous in sequence with PF4 but have quite different functions. The structure of a tetramer of bovine PF4 complexed with one Ni(CN)4(2-) molecule has been determined at 3.0 A resolution and refined to an R factor of 0.28. The current model contains residues 24-85, no solvent, and one overall temperature factor. Residues 1-13, which carried an oligosaccharide chain, were removed with elastase to induce crystallization; residues 14-23 and presumably 86-88 are disordered in the electron density map. Because no heavy atom derivative was isomorphous with the native crystals, the complex of PF4 with one Ni(CN)4(2-) molecule was solved using a single, highly isomorphous Pt(CN)4(2-) derivative and the iterative, single isomorphous replacement method. The secondary structure of the PF4 subunit, from amino- to carboxyl-terminal end, consists of an extended loop, three strands of antiparallel beta-sheet arranged in a Greek key, and one alpha-helix. The tetramer contains two extended, six-stranded beta-sheets, each formed by two subunits, which are arranged back-to-back to form a "beta-bilayer" structure with two buried salt bridges sandwiched in the middle. The carboxyl-terminal alpha-helices, which contain lysine residues that are thought to be intimately involved in binding heparin, are arranged as antiparallel pairs on the surface of each extended beta-sheet.
Studies on Polynucleotides (1974)

Abstract Poly(dT) with the average chain length of 80 nucleotides and containing 3'-phosphate end groups was condensed with cellulose by the use of a water soluble carbodiimide. The product, which contained free 5'-hydroxyl groups at the terminal thymidine residues, was phosphorylated using [γ-32P]ATP and the polynucleotide kinase. A synthetic deoxyribo-oligonucleotide segment corresponding to a portion of the Escherichia coli tyrosine tRNA gene (dC-C-C-CA-C-C) was extended at its 3'-OH end by growing a polythymidylate chain using deoxypolynucleotidyltransferase. The thymidine at the 3' end of this product was covalently linked to the 5'-phosphate end (32P-labeled) of the cellulose-linked polythymidylate by using polynucleotide ligase and poly(dA) as the template. Replication of the specific sequence dC-C-C-C-A-C-C in the above cellulose-linked polynucleotide was investigated by using a short (rA)n or poly(dA) as primers suitably hybridized to the poly(dT) region. The product of replication was readily separated from the template after denaturation and was characterized by nearest neighbor frequency analysis.
Bipyridyl‐ and Biphenyl‐DNA: A Recognition Motif Based on Interstrand Aromatic Stacking (2005)

The synthesis and incorporation into oligonucleotides of C-nucleosides containing the two aromatic, non-hydrogen-bonding nucleobase substitutes biphenyl (I) and bipyridyl (Y) are described. Their homo- and hetero-recognition properties in different sequential arrangements were then investigated via UV-melting curve analysis, gel mobility assays, CD- and NMR spectroscopy. An NMR analysis of a dodecamer duplex containing one biphenyl pair in the center, as well as CD data on duplexes with multiple insertions provide further evidence for the zipper-like interstrand stacking motif that we proposed earlier based on molecular modeling. UV-thermal melting experiments with duplexes containing one to up to seven I- or Y base pairs revealed a constant increase in T(m) in the case of I and a constant decrease for Y. Mixed I/Y base pairs lead to stabilities in between the homoseries. Insertion of alternating I/abasic site- or Y/abasic site pairs strongly decreases the thermal stability of duplexes. Asymmetric distribution of I- or Y residues on either strand of the duplex were also investigated in this context. Duplexes with three natural base pairs at both ends and 50 % of I pairs in the center are still readily formed, while duplexes with blunt ended I pairs tend to aggregate unspecifically. Duplexes with one natural overhang at the end of a I-I base pair tract can both aggregate or form ordered duplexes, depending on the nature of the natural bases in the overhang.
Disulfide trapping to localize small-molecule agonists and antagonists for a G protein-coupled receptor (2005)

A key question regarding the signaling mechanism for G protein-coupled receptors (GPCRs) is what triggers agonism versus antagonism. Peptide analogs derived from the chemokine, complement fragment 5 anaphylatoxin (C5a), can act as agonists or antagonists to the C5a receptor, a member of the GPCR family [Gerber, B. O., Meng, E. C., Dotsch, V., Baranski, T. J. & Bourne, H. R. (2001) J. Biol. Chem. 276, 3394-4000]. Recently, we showed that two Cys residues engineered near a proposed binding site in the C5a receptor on transmembrane helices III and VI can selectively and reversibly trap short Cys-containing 3-mer peptides derived from C5a by disulfide bond formation [Buck, E. A., Bourne, H. & Wells, J. A. (November 18, 2004) J. Biol. Chem., 10.1074/jbc.C400500200]. Here, a library of 10,000 compounds, each containing an exchangeable thiol, was screened to identify specific small-molecule mimics that block binding of C5a. Some of the selected compounds acted as agonists and were as potent as the natural C5a ligand, and some acted as antagonists. A residue near these compounds, Ile-116 in helix III, functions as a "gatekeeper" to modulate these effects. A small substitution, Ile-116-Ala, enhanced affinity for some compounds and allowed antagonists to function as agonists; a larger substitution, Ile-116-Trp, decreased affinity and agonism. Thus, subtle changes in either the structure of the ligand or the receptor at the site between helix III, VI, and VII can switch the receptor on or off. This ligand binding and activation site may be similarly positioned in other members of the chemokine receptor family. Selective ligand trapping by reversible disulfide formation may serve to nucleate the development of small-molecule mimics.
Efficient Asymmetric Transfer Hydrogenation of Ketones Catalyzed by an Iron Complex Containing a P−N−N−P Tetradentate Ligand Formed by Template Synthesis (2009)

A distorted iron complex formed by template synthesis is the basis of a very efficient and economical catalyst system for the asymmetric transfer hydrogenation of ketones for the production of valuable enantioenriched alcohols.
The PRO-ACT database (2014)

The PRO-ACT database is the largest publicly available repository of merged ALS clinical trials data. We report that baseline levels of creatinine and uric acid, as well as baseline BMI, are strong predictors of disease progression and survival.
Synergistic activation of human monocytes by granulocyte-macrophage colony-stimulating factor and IFN-gamma. Increased TNF-alpha but not IL-1 activity. (1988)

TNF-alpha and IL-1 activities and PGE2 levels were investigated in the supernatants of highly purified human monocytes cultured for 18 h with recombinant human granulocyte-macrophage CSF (GM-CSF). GM-CSF alone did not stimulate IL-1 or TNF-alpha activities or the production of PGE2. GM-CSF with IFN-gamma, but not with LPS, consistently activated the monocytes for TNF-alpha activity. In contrast, for increased IL-1 activity, GM-CSF synergized weakly and irregularly with LPS, but not at all with IFN-gamma. For the third monocyte product investigated, GM-CSF was a weak and inconsistent inducer of PGE2 and only in the co-presence of IFN-gamma. Thus, GM-CSF can elicit different responses in human monocytes depending both on the co-stimulus as well as the monocyte product being investigated.
Simulating the Clinical Care of Patients: A Comprehensive Mathematical Model of Human Pathophysiology (1995)

A comprehensive mathematical model of human pathophysiology has been combined with a clinically realistic computer interface in order to allow users to develop and refine clinical skills. Users apply medical diagnostic and treatment maneuvers that impact patient clinical and cost outcomes. The computer system will critique performance on several levels and allow users to replay the simulation to improve clinical insight.
Advances in the Treatment of Fragile X Syndrome (2008)

The FMR1 mutations can cause a variety of disabilities, including cognitive deficits, attention-deficit/hyperactivity disorder, autism, and other socioemotional problems, in individuals with the full mutation form (fragile X syndrome) and distinct difficulties, including primary ovarian insufficiency, neuropathy and the fragile X-associated tremor/ataxia syndrome, in some older premutation carriers. Therefore, multigenerational family involvement is commonly encountered when a proband is identified with a FMR1 mutation. Studies of metabotropic glutamate receptor 5 pathway antagonists in animal models of fragile X syndrome have demonstrated benefits in reducing seizures, improving behavior, and enhancing cognition. Trials of metabotropic glutamate receptor 5 antagonists are beginning with individuals with fragile X syndrome. Targeted treatments, medical and behavioral interventions, genetic counseling, and family supports are reviewed here.
POSITIONAL DISTRIBUTION OF FATTY ACIDS IN TRIACYLGLYCEROLS OF SEAL BLUBBER OIL (1997)

ABSTRACT The positional distribution of long‐chain ω3 polyunsaturated fatty acids namely eicosapentaenoic acid (EPA), docosapentaenoic acid (DPA), and docosahexaenoic acid (DHA) in the triacylglycerol (TAG) molecules of seal blubber oil was determined and compared with that of commercially available menhaden oil via stereospecific analysis. In seal blubber oil, EPA, DPA and DHA occurred mainly in the sn‐1 and sn‐3 positions of the TAG molecules. The amounts were EPA, 8.36 and 11.2; DPA, 3.99 and 8.21; and DHA, 10.5 and 17.9%, respectively. In menhaden oil, DPA and DHA occurred mainly in the sn‐2 position of the TAG at 3.11 and 17.2%, respectively. However, EPA was equally distributed in the sn‐2 and sn‐3 positions and was present only in minute amounts in the sn‐1 position.