gebhart/patrepeval huggingface dataset:
Strongly Photoluminescent CdTe Nanocrystals by Proper Surface Modification (1998)

CdTe nanoclusters were prepared in aqueous solution by the reaction between Cd2+ and NaHTe in the presence of thioglycolic acid. Under reflux, the clusters start to crystallize and show a narrow band emission. The photoluminescence efficiency of CdTe nanocrystals strongly depends on the pH value of the colloidal solution. The maximum quantum yield at room temperature is approximately 18% when the pH value of the CdTe solution is brought to 4.5 by using thioglycolic acid. The optical spectroscopy studies imply that the pH-dependent behavior of the CdTe nanocrystals' fluorescence is caused by structural changes on the surface rather than the size of the nanocrystals. Systematic absorption and fluorescence studies on dialyzed samples suggest that in the acidic range a shell of cadmium thiol complexes is formed around the CdTe core. Thus, the fluorescence quantum yield is enhanced dramatically when the solution is made acidic. In contrast, such a shell can also be produced in the alkaline range, but only after the CdTe nanocrystal crude solution is purified by dialysis.
Randomized Study of Three Different Doses of Suramin Administered With a Fixed Dosing Schedule in Patients With Advanced Prostate Cancer: Results of Intergroup 0159, Cancer and Leukemia Group B 9480 (2002)

Although high-dose suramin was associated with higher objective and PSA response rates, these were not statistically significant. Overall, no dose-response relationship was observed for survival or progression-free survival, but toxicity was increased with the higher dose. Patients treated with the low-dose level experienced modest toxicity, making it the preferred arm on this study. The lack of a dose-response relationship and the toxicity profile observed raise questions regarding the utility of suramin, particularly high-dose suramin, as administered on this schedule.
Cognitive Behavioral Treatment of Postpartum Onset (2009)

This case study describes the application of cognitive behavioral therapy (CBT) for obsessive compulsive disorder (OCD) with postpartum onset. Sara, a 29-year-old woman, presented with aggressive obsessions of strangling and drowning her 5-month-old son. When she presented at the clinic, Sara had recently begun pharmacological treatment and was highly motivated to supplement this treatment with CBT. She showed marked improvement over the course of 8 CBT sessions using exposure and ritual prevention. This case study highlights cognitive and behavioral risk factors for OCD with postpartum onset, key considerations in differential diagnosis, and the utility of CBT for OCD with this population.
Novel Polyion Complex Micelles Entrapping Enzyme Molecules in the Core:  Preparation of Narrowly-Distributed Micelles from Lysozyme and Poly(ethylene glycol)−Poly(aspartic acid) Block Copolymer in Aqueous Medium (1998)

A core−shell-type supramolecular assembly, a polyion complex micelle, was prepared in this study from chicken egg white lysozyme and poly(ethylene glycol)−poly(aspartic acid) block copolymer (PEG-P(Asp)) through electrostatic interaction in aqueous medium. Lysozyme/PEG-P(Asp) micelles thus prepared had an extremely narrow distribution (μ2/Γ2 < 0.04) with an average diameter of 47 nm in dynamic light scattering measurements. No precipitate formation was observed even after 1 month standing at ambient temperature, suggesting that the system is in a thermodynamic equilibrium state. The stoichiometry in terms of the molar ratio of Lys and Arg residues in lysozyme and Asp residues in PEG-P(Asp) was confirmed by dynamic and static light scattering as well as by laser-Doppler electrophoresis measurements. A change in the apparent molar mass of the micelle with varying PEG-P(Asp)/lysozyme ratio in the region with excess lysozyme agreed well with calculated values if a cooperative association mechanism is assumed to occur. The diffusion coefficient of lysozyme/PEG-P(Asp) micelles prepared at a stoichiometric mixing ratio showed neither angular nor concentration dependence, indicating their spherical shape with no secondary aggregate formation. A core−shell structure with a polyion complex core and a PEG corona was suggested from an extremely low absolute value of zeta-potential. The association numbers of lysozyme and PEG-P(Asp) in the stoichiometric micelle were calculated from the apparent molar mass and were determined to be 36 and 42 for lysozyme and PEG-P(Asp), respectively. Such PIC micelles entrapping enzymes in the core are expected to be useful as functional materials including carrier systems in drug delivery applications and a nanometric-scale reactor for enzymes.
Real-time digital hardware pitch detector (1976)

A high-quality pitch detector has been built in digital hard-ware and operates in real time at a 10 kHz sampling rate. The hardware is capable of providing energy as well as pitch-period estimates. The pitch and energy computations are performed 100 times/s (i.e., once per 10 ms interval). The algorithm to estimate the pitch period uses center clipping, infinite peak clipping, and a simplified autocorrelation analysis. The analysis is performed on a 300 sample section of speech which is both center clipped and infinite peak clipped, yielding a three-level speech signal where the levels are -1, 0, and +1 depending on the relation of the original speech sample to the clipping threshold. Thus computation of the autocorrelation function of the clipped speech is easily implemented in digital hardware using simple combinatorial logic, i.e., an up-down counter can be used to compute each correlation point. The pitch detector has been interfaced to the NOVA computer facility of the Acoustics Research Department at Bell Laboratories.
A Review of Keratin-Based Biomaterials for Biomedical Applications (2010)

Advances in the extraction, purification, and characterization of keratin proteins from hair and wool fibers over the past century have led to the development of a keratin-based biomaterials platform. Like many naturally-derived biomolecules, keratins have intrinsic biological activity and biocompatibility. In addition, extracted keratins are capable of forming self-assembled structures that regulate cellular recognition and behavior. These qualities have led to the development of keratin biomaterials with applications in wound healing, drug delivery, tissue engineering, trauma and medical devices. This review discusses the history of keratin research and the advancement of keratin biomaterials for biomedical applications.
Effect of polymeric nanoparticle administration on the clearance activity of the mononuclear phagocyte system in mice (1996)

We investigated the consequences of acute and subacute administration of mice with polyisobutylcyanoacrylate (PIBCA), polyisohexylcyanoacrylate (PIHCA), poly(d,l-lactic) acid (PLA), and polystyrene (PS) nanoparticles on the mononuclear phagocyte system phagocytic function. This was done by measuring the clearance rate of colloidal carbon. Single administration of PIBCA and PIHCA (but not PLA and PS) nanoparticles reduced carbon clearance in both a time- and dose-dependent fashion. Since clearance of preopsonized carbon was normal, it was assumed that PIBCA and PIHCA nanoparticles deplete opsonins specific for carbon recognition. A decrease in plasma fibronectin levels resulting from nanoparticle administration suggested its implication in their removal from blood. However, fibronectin does not seem to be responsible for PIBCA and PIHCA blockade. Phagocytic function was preserved after repeated treatment with nanoparticles, probably as a result of increased Kupffer cell phagocytic activity and the contribution of spleen macrophages. Neither toxicity nor effects due to nanoparticle hepatic accumulation were observed. © 1996 John Wiley & Sons, Inc.
Effect of a Novel Eicosapentaenoic Acid‐Rich Oil on Serum Cholesterol in Man: Comparison to Docosahexaenoic Acid (2010)

Background Fish oil and DHA raise LDL cholesterol (LDL‐C); the effects of EPA are less defined. Study Design 121 healthy volunteers were recruited into a randomized, double‐blinded, placebo‐controlled, parallel‐arm, 6 week study. The placebo group received olive oil; the low dose EPA group (EPA600) received 600 mg/day of a yeast derived EPA; the high dose EPA group (EPA1800) received 1800 mg/day, and the DHA group (DHA600) received 600 mg/day of an algal derived DHA. Notably, the EPA oil did not contain any DHA and the DHA oil did not contain any EPA. Results 110 subjects completed the study. The study population was 21–70 yrs of age, 67% male, 33% female, with an average BMI of 27.4. Subjects were not allowed lipid‐lowering medications or omega‐3 dietary supplements during the study and were counseled to maintain their normal diet and exercise programs. The number of subjects who remained free of fishy aftertaste or eructation was 92% for placebo, 85% for EPA600, 72% for EPA1800, and 61% for DHA600. The placebo group exhibited a 6% decrease in LDL‐C (n=26, P&lt;0.01); the EPA600 group a 3% decrease in LDL‐C (n=27, NS), the EPA1800 group a 2% decrease in LDL‐C (n=29, NS); in contrast, the DHA group exhibited a 14% increase in LDL‐C (n=28, P&lt;0.02). HDL and TG levels were relatively unaffected. Conclusion DHA, but not EPA, raised LDL‐C in normal lipidemic subjects at a dietary intake of 600 mg/day for 6 weeks. Funded by DuPont.
Lattice-Boltzmann studies of multiphase flow through porous media (1992)

Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Earth, Atmospheric, and Planetary Sciences, 1992.
Monitoring in planta bacterial infection at both cellular and whole‐plant levels using the green fluorescent protein variant GFPuv (2007)

* Green fluorescent protein (GFP) labeling of bacteria has been used to study their infection of and localization in plants, but strong autofluorescence from leaves and the relatively weak green fluorescence of GFP-labeled bacteria restrict its broader application to investigations of plant-bacterial interactions. * A stable and broad-host-range plasmid vector (pDSK-GFPuv) that strongly expresses GFPuv protein was constructed not only for in vivo monitoring of bacterial infection, localization, activity, and movement at the cellular level under fluorescence microscopy, but also for monitoring bacterial disease development at the whole-plant level under long-wavelength ultraviolet (UV) light. * The presence of pDSK-GFPuv did not have significant impact on the in vitro or in planta growth and virulence of phytobacteria. A good correlation between bacterial cell number and fluorescence intensity was observed, which allowed us to rapidly estimate the bacterial population in plant leaf tissue. We demonstrated that GFPuv-expressing bacteria can be used to screen plants that are compromised for nonhost disease resistance and Agrobacterium attachment. * The use of GFPuv-labeled bacteria has a wide range of applications in host-bacterial interaction studies and bacterial ecology-related research.
Towards Linear-Time Incremental Structure from Motion (2013)

The time complexity of incremental structure from motion (SfM) is often known as O(n^4) with respect to the number of cameras. As bundle adjustment (BA) being significantly improved recently by preconditioned conjugate gradient (PCG), it is worth revisiting how fast incremental SfM is. We introduce a novel BA strategy that provides good balance between speed and accuracy. Through algorithm analysis and extensive experiments, we show that incremental SfM requires only O(n) time on many major steps including BA. Our method maintains high accuracy by regularly re-triangulating the feature matches that initially fail to triangulate. We test our algorithm on large photo collections and long video sequences with various settings, and show that our method offers state of the art performance for large-scale reconstructions. The presented algorithm is available as part of VisualSFM at http://homes.cs.washington.edu/~ccwu/vsfm/.
Chemical structure and immunobiological activity of Porphyromonas gingivalis lipid A (2007)

In 1933, Boivin et al. extracted an endotoxin from Salmonella typhimurium for the first time, after which a variety of chemical and biological studies on endotoxins have been performed. In 1952, the structural and functional properties of endotoxic lipopolysaccharide (LPS), extracted by a hot phenol and water method devised by Westphal et al., were reported, which led to a number of studies of Gram-negative bacteria in regards to the host defense mechanism. Since 1960, the unique chemical structure and biological activity of Bacteroides species LPS have received a great deal of attention, and there is a long history of such studies. In addition, among oral bacterial strains that have received attention as causative periodontopathic bacteria, many have been classified as Bacteroides species. In particular, a number of researchers have investigated whether LPS of Porphyromonas gingivalis (formerly Bacteroides gingivalis), a black-pigmented oral anaerobic rod, is a virulent factor of the bacterium. The active center of the LPS of these Bacteroides species, the lipid A molecule, is known to be an active participant in endotoxic activation, though its other biological activities are weak, due to its unique chemical structure and action as an antagonist of LPS. On the other hand, many reports have noted that the LPS of those species activate cells in C3H/HeJ mice, which generally do not respond to LPS. We were the first to reveal the chemical structure of P. gingivalis lipid A and, together with other researchers, reported that P. gingivalis LPS and its lipid A have activities toward C3H/HeJ mice. Since that time, because of the popularity of Toll-like receptor (TLR) studies, a great deal of evidence has been reported indicating that P. gingivalis LPS and its lipid A are ligands that act on TLR2. In order to solve such problems as heterogeneity and contamination of the biologically active components of P. gingivalis lipid A, we produced a chemical synthesis counterpart of lipid A and test results indicated it to be a TLR4 agonist. Furthermore, in order to disprove the common belief that P. gingivalis LPS and its lipid A are TLR2 ligands, the TLR2-active component contained in a P. gingivalis LPS fraction was separated and purified, after which we showed its chemical structure to be a lipoprotein consisting of three fatty acid residues, thus answering a longstanding question regarding Bacteroides species LPS. In addition to the field of dentistry, many studies based on the misconception of "TLR2-active LPS/lipid A" still exist in the field of innate immunity. Based on the history of studies of ligands acting on TLR4, Bacteroides species LPS findings were reviewed and are presented here. In particular, we investigated P. gingivalis LPS and its lipid A.
An Isotope-Edited FT-IR Study of a Symporter, the Lactose Permease (2002)

The lactose permease of Escherichia coli transports protons and lactose across the plasma membrane and uses a transmembrane ion gradient as the energy source to drive the uphill accumulation of lactose. In this report, the effect of the electrochemical gradient on the permease has been studied. Bacteriorhodopsin was co-reconstituted with the lactose permease to provide a light-triggered electrochemical gradient. Reaction-induced Fourier transform infrared spectra were acquired, and bacteriorhodopsin contributions were subtracted. In previous work, positive bands in the 1765-1730 cm(-1) region of the reaction-induced FT-IR spectrum were attributed to the perturbation of carboxylic acid residues in the permease [Patzlaff, J. S., Brooker, R. J., and Barry, B. A. (2000) J. Biol. Chem. 275, 28695-28700]. In this study, we have globally labeled the permease with (13)C or (15)N. Isotopic labeling demonstrates that features in the reaction-induced FT-IR spectrum arise from permease carboxylic acid, amide I, and amide II vibrational modes. In addition, isotope labeling leads to a tentative assignment of spectral features to lysine, arginine, histidine, glutamine, and/or asparagine in the permease. These results indicate that the electrochemical gradient causes changes in the environment or protonation state of carboxylic acid residues in the permease and suggest an interaction between these carboxylic acid side chains and nitrogen-containing amino acid side chains. Evidence for a change in secondary structure, corresponding to an interconversion of secondary structural elements, a change in the hydrogen-bonding strength, or coupling of peptide vibrational modes, is also presented. These experiments demonstrate the usefulness of reaction-induced spectroscopy in the study of transmembrane transport.
The intramolecular β-fluorine⋯ammonium interaction in 4- and 8-membered rings (2006)

The structures of 3-fluoroazetidinium hydrochloride and 3-fluoro-1,5-diazacyclooctane hydrobromide are explored both by X-ray diffraction analysis and DFT calculations, and the conformations of these molecules are shown to be significantly influenced by the through space C–F⋯N+ interaction.
Post-translational palmitoylation and glycosylation of Wnt-5a are necessary for its signalling (2007)

Wnt-5a is a representative ligand that activates a beta-catenin-independent pathway in Wnt signalling. In the present paper, the roles of the post-translational modifications in the actions of Wnt-5a were investigated. We found that Wnt-5a is modified with palmitate at Cys104 and glycans at Asn114, Asn120, Asn311 and Asn325. The palmitoylation was not essential for the secretion of Wnt-5a, but was necessary for its ability to suppress Wnt-3a-dependent T-cell factor transcriptional activity and to stimulate cell migration. Wnt-5a activated focal adhesion kinase and this activation also required palmitoylation. Wild-type Wnt-5a induced the internalization of Fz (Frizzled) 5, but a Wnt-5a mutant that lacks the palmitoylation site did not. Furthermore, the binding of Wnt-5a to the extracellular domain of Fz5 required palmitoylation of Wnt-5a. These results indicate that palmitoylation of Wnt-5a is important for the triggering of signalling at the cell surface level and, therefore, that the lipid-unmodified form of Wnt-5a cannot activate intracellular signal cascades. In contrast, glycosylation was necessary for the secretion of Wnt-5a, but not essential for the actions of Wnt-5a. Thus the post-translational palmitoylation and glycosylation of Wnt-5a are important for the actions and secretion of Wnt-5a.
Evaluation of a Sulfobutyl Ether β-Cyclodextrin as a Solubilizing/Stabilizing Agent for Several Drugs (1998)

To evaluate the potential use of beta-cyclodextrin sulfobutyl ether, 7 sodium salt (SBE7-beta-CD) as a drug solubilizing and stabilizing agent, the solubilizing effects of SBE7-beta-CD on 22 different poorly water-soluble drugs were compared with those of intact beta-CD and heptakis-(2,6-di-O-methyl)-beta-CD (DMCD). SBE7-beta-CD was generally a more effective solubilizer for poorly water-soluble drugs than was intact beta-CD, but SBE7-beta-CD was not as effective as DMCD. The effects of SBE7-beta-CD on the acid hydrolysis rate of prostaglandin I2, the alkaline hydrolysis rate of indomethacin, the dehydration of prostaglandin E1, and the isomerization of prostaglandin A1 were also investigated and compared to those for intact beta-CD, DMCD, and 2,3,6 partially methylated-beta-CD (PMCD). The stabilizing effects of SBE7-beta-CD on chemically unstable drugs were generally higher than those of other CDs.
Automatic Identification of Software System Differences (1987)

A well-known method for software version control on the source file level is the incremental change technique, which isolates the differences, commonly called a delta, between two versions of a source module, and then stores only the delta. Any version of a source module can then be reconstructed from the original by successive application of deltas. The significant advantages of this approach include accuracy (because it is automatic), visibility (because it highlights differences), and economy (because it conserves storage space).
Role of Interleukin-1 Inhibitory Molecules in Therapy of Acute and Chronic Myelogenous Leukemia (1993)

The poor outcome of conventional therapy of acute and chronic myelogenous leukemias (AML and CML) has prompted several groups to investigate new therapeutic directions. Data from various laboratories, including our own, indicate that both normal and leukemia precursors proliferate in response to growth factors. Furthermore, it has been shown that AML blasts, low-density cells from CML patients with advanced disease, and cultured bone marrow-adherent layers from CML blast crisis patients produce interleukin 1 (IL-1); this molecule may play a pivotal role in driving leukemia cell proliferation through autocrine or paracrine pathways. We have therefore hypothesized that interruption of the IL-1-mediated growth-stimulatory mechanism may suppress leukemia precursor multiplication. In searching for IL-1-inhibitory molecules that may be used clinically, we have investigated the in vitro effects of various IL-1 inhibitors including IL-1 receptor antagonist, soluble IL-1 receptors, and interleukin 4. Our studies suggest that IL-1 inhibitors can suppress clonogenic growth of cultured AML and CML progenitors and may hence be exploitable in clinical trials.
Oligomeric forms of single chain immunoglobulin (scIgG) (2010)

Assembly of immunoglobulin G (IgG) molecules from two heavy and two light chains can be facilitated by connecting the light chain to the heavy chain by an oligopeptide linker. Production of the anti-lysozyme D1.3-single chain (sc) IgG1 in HEK293T cells yielded up to 8 mg/L functional scIgG polypeptide. Size exclusion chromatography of material purified by protein-A affinity chromatography revealed that the majority of the D1.3-scIgG1 molecules were 150 kDa monomers, with a K(D) of 1.8 x 10(-10) M measured by surface plasmon resonance; however, significant fractions of scIgG dimers and oligomers with molecular masses of 300 kDa and >600 kDa, respectively, were identified. The oligomerization resulted in an increased avidity. The observed oligomerization capability may allow new approaches for the generation of bispecific/multivalent antibodies.
Monthly Oral Ibandronate Therapy in Postmenopausal Osteoporosis: 1-Year Results From the MOBILE Study (2005)

Monthly ibandronate is at least as effective and well tolerated as the currently approved daily ibandronate regimen in postmenopausal osteoporosis.
Inhibition of Death Receptor Signaling by Flice-Inhibitory Protein as a Mechanism for Immune Escape of Tumors (1999)

Cell death by apoptosis is a tightly regulated physiological process that enables the elimination of unwanted cells. It is crucial for embryonic development and the maintenance of tissue homeostasis, but also for defense against certain infectious diseases and cancer.

Apoptosis can be triggered