gebhart/patrepeval huggingface dataset:
Cassie and Wenzel:  Were They Really So Wrong? (2007)

The properties of superhydrophobic surfaces are often understood by reference to the Cassie-Baxter and Wenzel equations. Recently, in a paper deliberately entitled to be provocative, it has been suggested that these equations are wrong; a suggestion said to be justified using experimental data. In this paper, we review the theoretical basis of the equations. We argue that these models are not so much wrong as have assumptions that define the limitations on their applicability and that with suitable generalization they can be used with surfaces possessing some types of spatially varying defect distributions. We discuss the relationship of the models to the previously published experiments and using minimum energy considerations review the derivations of the equations for surfaces with defect distributions. We argue that this means the roughness parameter and surface area fractions are quantities local to the droplet perimeter and that the published data can be interpreted within the models. We derive versions of the Cassie-Baxter and Wenzel equations involving roughness and Cassie-Baxter solid fraction functions local to the three-phase contact line on the assumption that the droplet retains an average axisymmetry shape. Moreover, we indicate that, for superhydrophobic surfaces, the definition of droplet perimeter does not necessarily coincide with the three-phase contact line. As a consequence, the three-phase contact lines within the contact perimeter beneath the droplet can be important in determining the observed contact angle on superhydrophobic surfaces.
Phase I and Pharmacologic Study of the Novel Indoloquinone Bioreductive Alkylating Cytotoxic Drug E09 (1994)

The MTD of E09 was determined to be 27 mg/m2. The standard approach of drug administration is considered unsuitable because of potential renal toxicity and wide variability in the pharmacokinetics of E09. Individual dose adjustments based on plasma concentration measurements are recommended to combine maximally achievable exposure with tolerable toxicity.
Spectral analysis of heart rate variability in spontaneously breathing very preterm infants (1994)

The influence of maturation, sleep state and respiration on heart rate variability was studied in 16 spontaneously breathing preterm infants (< 33 weeks). ECG, respiratory impedance curve and movements were recorded four times a day, during the first three days of life. The power content of selected frequency bands of the R-R interval power spectrum, as well as respiratory frequency and breath amplitude oscillation frequency, were calculated for 3-min periods. An increase in low-frequency heart rate variability with gestational age was found. High-frequency variability increased during early postnatal life. Sleep state influenced very low-frequency heart rate variability. The amount of respiratory sinus arrhythmia and breath amplitude sinus arrhythmia was determined mainly by respiratory rate and breath amplitude oscillation frequency, respectively. The influences of gestational and postnatal age on heart rate variability might be due to an increase in sympathetic tone before birth and a change in parasympathetic-sympathetic balance after birth. Respiration has an important influence on heart rate variability, even in very preterm infants.
Avidin:  A Natural Bridge for Quantum Dot-Antibody Conjugates (2002)

We describe the preparation and characterization of bioinorganic conjugates in which luminescent semiconductor CdSe-ZnS core-shell nanocrystal quantum dots (QDs) were coupled to antibodies through the use of an avidin bridge adsorbed to the nanocrystal surface via electrostatic self-assembly. Avidin, a highly positively charged protein, was found to adsorb tightly to QDs modified with dihydrolipoic acid, which gives their surface a homogeneous negative charge. QD conjugation to biotinylated antibodies subsequently is readily achieved. Fluoroimmunoassays utilizing these antibody conjugated QDs were successful in the detection of protein toxins (staphylococcal enterotoxin B, cholera toxin). QD-antibody conjugates formed in such a facile manner permit their use as a common immuno reagent, and in the development of multianalyte detection.
Evaluation of the bacterial diversity in the feces of cattle using 16S rDNA bacterial tag-encoded FLX amplicon pyrosequencing (bTEFAP) (2008)

Using bTEFAP we have examined the microbiota in the feces of cattle. As these methods continue to mature we will better understand the ecology of the major populations of bacteria the lower intestinal tract. This in turn will allow for a better understanding of ways in which the intestinal microbiome contributes to animal health, productivity and wellbeing.
The β-secretase enzyme BACE1 as a therapeutic target for Alzheimer's disease (2011)

Amyloid plaques are defining histopathologic lesions in the brains of Alzheimer's disease (AD) patients and are composed of the amyloid-beta peptide, which is widely considered to play a critical role in the pathogenesis of AD. The β-secretase, or β-site amyloid precursor protein cleaving enzyme 1 (BACE1; also called Asp2, memapsin 2), is the enzyme that initiates the generation of amyloid beta. Consequently, BACE1 is an attractive drug target for lowering cerebral levels of amyloid beta for the treatment or prevention of AD. Much has been learned about BACE1 since its discovery over 10 years ago. In the present article, we review BACE1 properties and characteristics, cell biology, in vivo validation, substrates, therapeutic potential, and inhibitor drug development. Studies relating to the physiological functions of BACE1 and the promise of BACE1 inhibition for AD will also be discussed. We conclude that therapeutic inhibition of BACE1 should be efficacious for AD, although careful titration of the drug dose may be necessary to limit mechanism-based side effects.
Hidden surveillance by Web sites (2003)

article Share on Hidden surveillance by Web sites: Web bugs in contemporary use Authors: David Martin University of Massachusetts at Lowell University of Massachusetts at LowellView Profile , Hailin Wu University of Denver University of DenverView Profile , Adil Alsaid Royal Holloway University of London Royal Holloway University of LondonView Profile Authors Info & Claims Communications of the ACMVolume 46Issue 12December 2003 pp 258–264https://doi.org/10.1145/953460.953509Published:01 December 2003Publication History 29citation2,550DownloadsMetricsTotal Citations29Total Downloads2,550Last 12 Months88Last 6 weeks3 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my Alerts New Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteGet Access
Prognostic Factors in Patients With Melanoma Metastatic to Axillary or Inguinal Lymph Nodes (1991)

Although pathologic nodal status is a major determinant of outcome in melanoma, there is substantial prognostic heterogeneity among node-positive patients. This study was undertaken to further clarify significant variables predicting survival in patients with melanoma metastatic to axillary or groin nodes. From 1019 patients with melanoma undergoing axillary or groin dissection between 1974 and 1984, the authors identified 449 patients with histologically positive nodes. Both univariate and multivariate analyses were performed using the Kaplan-Meier product limit method and the Cox model of proportional hazard regression. The major determinant of survival was pathologic stage (PS) according to the 1983 AJCC staging system. Three hundred fifty patients (78%) were classified PS-III (one nodal group involved), with a survival of 39% at 5 years and 32% at 10 years. Factors independently predictive of a favorable outcome in these patients were nontruncal primary site (p = 0.0002), microscopic nodal involvement (p = 0.001), number of positive nodes less than three (p = 0.003), and absence of extranodal disease (p = 0.01). Ninety-nine patients (22%) were classified PS-IV, 51 with two nodal stations involved (N2), 25 with intransit disease and one nodal station involved (N2), 7 with extraregional soft tissue metastases (M1), and 16 with visceral metastases (M2). Survival for PS-IV patients was 9% at 5 and 10 years, respectively. Within PS-IV, factors independently predictive of a more favorable outcome were the absence of extranodal disease (p = 0.0001), female sex (p = 0.03), and a long interval from diagnosis to lymph node dissection (p = 0.04). These factors were incorporated into a model predicting relative risk of death from disease for both PS-III and PS-IV patients, separating patients into groups at high, intermediate, and low risk of recurrence after lymphadenectomy.
Oral Small Peptides Render HDL Antiinflammatory in Mice and Monkeys and Reduce Atherosclerosis in ApoE Null Mice (2005)

A peptide containing only 4 amino acid residues (KRES) that is too small to form an amphipathic helix, reduced lipoprotein lipid hydroperoxides (LOOH), increased paraoxonase activity, increased plasma HDL-cholesterol levels, rendered HDL antiinflammatory, and reduced atherosclerosis in apoE null mice. KRES was orally effective when synthesized from either L or D-amino acids suggesting that peptide-protein interactions were not required. Remarkably, changing the order of 2 amino acids (from KRES to KERS) resulted in the loss of all biologic activity. Solubility in ethyl acetate and interaction with lipids, as determined by differential scanning calorimetry, indicated significant differences between KRES and KERS. Negative stain electron microscopy showed that KRES formed organized peptide-lipid structures whereas KERS did not. Another tetrapeptide FREL shared many of the physical-chemical properties of KRES and was biologically active in mice and monkeys when synthesized from either L- or D-amino acids. After oral administration KRES and FREL were found associated with HDL whereas KERS was not. We conclude that the ability of peptides to interact with lipids, remove LOOH and activate antioxidant enzymes associated with HDL determines their antiinflammatory and antiatherogenic properties regardless of their ability to form amphipathic helixes.
Automated Structure Solution With autoSHARP (2006)

We present here the automated structure solution pipeline "autoSHARP." It is built around the heavy-atom refinement and phasing program SHARP, the density modification program SOLOMON, and the ARP/wARP package for automated model building and refinement (using REFMAC). It allows fully automated structure solution, from merged reflection data to an initial model, without any user intervention. We describe and discuss the preparation of the user input, the data flow through the pipeline, and the various results obtained throughout the procedure.
Evidence for Bilayer Assembly of Cationic Surfactants on the Surface of Gold Nanorods (2001)

The surface structure of gold nanorods (NRs) capped with cationic surfactants in water was studied by FTIR, thermogravimetric analysis (TGA), and transmission electron microscopy (TEM). For gold nanorods, the FTIR results show the formation of new bands, which indicate binding of the surfactant headgroup to the surface of the NR. These bands are stable at temperatures as high as 350 °C. For a surfactant mixture (used as capping material), TGA shows a weak weight loss peak at 235 °C and a strong peak at 298 °C assigned to the surfactant molecules in monomer and aggregated forms, respectively. For gold nanorods, three weight loss peaks at about 230, 273, and 344 °C are observed. For gold nanospheres (NSs), TGA shows a strong mass loss at 225 °C and two weak mass loss peaks at 255 and 288 °C. The released material after combustion in the TGA process was analyzed by FTIR spectroscopy and found to be CO2. Our results suggest the following for both NRs and NSs: (1) There are two different binding modes for the surfactant molecules capping these nanoparticles. (2) Surfactant molecules form a bilayer structure around the gold nanoparticles in which the inner layer is bound to the gold surface via the surfactant headgroups. (3) With increase of the temperature, the outer layer desorbs at lower temperature and consequently the inner layer leaves the surface at higher temperature. (4) The higher desorption temperature of the bilayer in the NRs compared to NSs is explained in terms of the difference in packing of the surfactant molecules and their adsorption energy to the different facets present in these nanoparticles. (5) TEM results suggest that the shape transformation of NRs to NSs occurs as the inner layer is released from the surface. (6) The CH2 rocking mode at 720 cm-1 suggests that the methylene chains have free rotation and surfactants are packed in a hexagonal structure.
A water-stable gadolinium(III) complex derived from a new pentadentate "expanded porphyrin" ligand (1989)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTA water-stable gadolinium(III) complex derived from a new pentadentate "expanded porphyrin" ligandJonathan L. Sessler, Toshiaki Murai, and Gregory HemmiCite this: Inorg. Chem. 1989, 28, 17, 3390–3393Publication Date (Print):August 1, 1989Publication History Published online1 May 2002Published inissue 1 August 1989https://pubs.acs.org/doi/10.1021/ic00316a030https://doi.org/10.1021/ic00316a030research-articleACS PublicationsRequest reuse permissionsArticle Views392Altmetric-Citations29LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Simultaneous Visualization of the Yellow and Green Forms of the Green Fluorescent Protein in Living Cells (1998)

In this study we sought to develop a method for the co-localization of proteins in living cells utilizing the enhanced green fluorescent protein (EGFP) and a red-shifted EGFP variant, EYFP (enhanced yellow fluorescent protein). EYFP was expressed as an unsubstituted molecule while EGFP was fused to NF1 (EGFP-NF1), a transcription factor found exclusively in the nucleus. The Leica TCS SP laser scanning confocal microscope was used. This microscope allows the user to monitor the emitted light at defined wavelengths owing to the presence of a monochrometer in the emission light path. pEGFP-NF1 and pEYFP were co-expressed in the same cell and excited with the 476-nm and 488-nm argon laser lines. To separate the EYFP and EGFP fluorescence, EGFP-NF1 emission was recorded between 496 and 505 nm. These wavelengths are on the left shoulder of the EGFP emission peak and exclude most of the EYFP fluorescence. The EYFP emission was followed between 670 and 754 nm, utilizing the tail of EYFP emission that extends well beyond that for EGFP. Under these conditions we obtained excellent discrimination between EYFP fluorescence and EGFP-NF1 emission. These observations demonstrate that EYFP- and EGFP-substituted chimeras can be used for simultaneous detection in living cells.
Safety and cognitive effect of frontal DC brain polarization in healthy individuals (2005)

Limited exposure to direct current polarization of the prefrontal cortex is safe and can enhance verbal fluency selectively in healthy subjects. As such, it deserves consideration as a procedure to improve frontal lobe function in patients.
Pathogenesis of veno-occlusive liver disease after radiation. (1980)

Radiation-induced liver disease is characterized structurally by progressive fibrous obliteration of central veins (veno-occlusive disease [VOD]). The pathogenesis is unknown. Samples of liver from 11 patients with radiation-induced VOD were studied by light and electron microscopy for evidence of central vein thrombosis. The patients had received fractionated radiation with total doses of 1,850 to 4,050 rads, or single doses of 1,000 rads. In addition, six patients had received chemotherapy. Although usually undetectable by light microscopy, fibrin was found in all samples, sometimes in large amounts, within central veins, and also often in the adjacent sinusoids. One sample had a small platelet aggregate. In two patients, portal veins also showed occlusive lesions. We postulate that ionizing radiation injures preferentially the endothelial cells of central veins, which leads to focal deposition of fibrin. The resulting fibrin network is eventually replaced by collagen, causing fibrous occlusion. In several patients, this type of liver injury occurred at radiation doses conventionally considered safe even in the absence of chemotherapy.
A BIRA Algorithm for Embedded Memories with 2-D Redundancy (2005)

One technique to increase the yield of memories is to incorporate spare rows and/or columns into the main memory array. However, due to the long bit-line and word-line lengths in today's SOC technology, it is not efficient to replace faulty cells with a spare row or a spare column. Therefore, the redundant rows (columns) are divided into row (column) blocks, respectively. The reconfiguration is performed at the row (column) block level instead of the conventional row (column) level. We first propose a redundancy analysis algorithm suitable for built-in implementation or embedded memories with 2D redundancy - the extended local repair-most (ELRM) algorithm. Due to the efficient utilization of redundant rows/columns, the manufacturing yield and reliability can be improved significantly. Thereafter, a simulator is implemented with C language for evaluating the repair rates of the proposed algorithm. Simulation results show the proposed approach can increase the repair rate and fabrication yield significantly.
Regulating Gene Expression in Zebrafish Embryos Using Light-Activated, Negatively Charged Peptide Nucleic Acids (2007)

We report the synthesis, characterization, and in vivo application of light-activated, negatively charged peptide nucleic acids (caged ncPNAs) for down-regulating gene expression during zebrafish embryonic development. The 18-mer ncPNAs were attached to a short complementary 2‘-OMe RNA sense strand (sRNA) via a heterobifunctional photocleavable linker (PL). Caged ncPNAs were designed to target chordin and bozozok mRNA. Modest UV irradiation cleaved the photoactive linker, which yielded the less stable ncPNA/sRNA duplex (ΔTm ∼ −20 °C for chordin and −41 °C for bozozok). These caged ncPNAs were microinjected into zebrafish (Danio rerio) embryos at the one- or two-cell stage. The conjugate was nontoxic, and most embryos showed no phenotypic response at 24 h post fertilization (24 hpf), which indicated low background activity. Embryos that were photoactivated at 2 or 3 hpf developed phenotypic abnormalities typical of embryos with loss of function of the chordin or bozozok gene. Phenotypic results were further confirmed by in situ hybridization experiments using molecular markers. Caged ncPNAs provide a promising “on → off” switch for down-regulating gene expression with high spatiotemporal control in biological systems.
PROLONGED DURATION OF GONADOTROPIN INHIBITION BY A THIRD GENERATION GNRH ANTAGONIST*& (1988)

The dose-response effects of a single administration of Nal-Lys-GnRHant (antagonist) on serum LH and FSH concentrations were compared to the effects of Nal-Glu-GnRHant in monkeys. Twenty ovariectomized monkeys were divided into four sc treatment groups: a) 1.0 mg/kg Nal-Glu-GnRHant; or Nal-Lys-GnRHant at b) 0.3; c) 1.0; d) 3.0 mg/kg. Each monkey received vehicle (propylene glycol/water, 1:1) on day 0, followed by an antagonist preparation on day 11. Serum LH and FSH were measured by RIA; serum LH was also measured by in vitro bioassay. The short-term effects were similar among the four treatment groups. Typically, serum LH declined (p less than 0.05) within 4 to 8 h, achieving maximal reduction by 24 h. Serum FSH levels declined more slowly, but were significantly reduced by 24 h (p less than 0.05). Recovery during the study interval to pretreatment control values occurred in only two groups: a) Nal-Glu-GnRHant (1.0 mg/kg) by day 4 post-treatment and b) Nal-Lys-GnRHant (0.3 mg/kg) by day 2 post-treatment. Monkeys receiving 1.0 or 3.0 mg/kg Nal-Lys-GnRHant had a prolonged inhibition of serum LH and FSH levels. In all animals, serum FSH and LH returned to control levels within 2 months. The duration of gonadotropin inhibition was also prolonged when the Nal-Lys-GnRHant was administered iv. In contrast, Nal-Glu-GnRHant reduced serum LH and FSH for 3 days or less in all monkeys. The serum bioassayable LH levels paralleled those of immunoassayable LH. The prolonged inhibition of gonadotropin secretion following Nal-Lys-GnRHant distinguishes its action from those of previous GnRH antagonists and make this compound of great interest for clinical investigations.
Synthetic lipopeptide analogs of bacterial lipoprotein are potent polyclonal activators for murine B lymphocytes. (1985)

The lipoprotein from the outer membrane of Escherichia coli and other Enterobacteriaceae is a potent polyclonal activator for B lymphocytes. To determine the molecular structure responsible for the biologic activity of lipoprotein, a well-defined series of analogs of its N-terminal part was synthesized: S-(2,3-bis(palmitoyloxy)-(2-RS)-propyl)-N-palmitoyl-(R)-cysteine, -cysteine methyl ester, -cysteinyl-serine, -cysteinyl-seryl-serine, -cysteinyl-seryl-seryl-asparagine, and -cysteinyl-seryl-seryl-asparaginyl-alanine. All compounds were tested for mitogenic activity toward spleen cells from BALB/c, LPS-non-responder C3H/HeJ, and congenitally athymic C3H/Tif/Bom/nu/nu mice, measuring the incorporation of [3H]thymidine into DNA. Lymphocyte activation was confirmed by determination of the incorporation of [3H]uridine into RNA and [3H]leucine into protein. The synthetic lipopeptides were also investigated for their ability to stimulate B lymphocytes into immunoglobulin secretion, as shown by a hemolytic plaque assay. Throughout our studies, the compounds carrying two to five amino acids exhibited strong stimulation activity toward B lymphocytes comparable to native lipoprotein. In contrast, products containing only one amino acid, cysteine or cysteine methyl ester, were only marginally active, indicating that to obtain full biologic activity the presence of the hydrophilic dipeptide structure is necessary. All compounds exhibited only a marginal effect on thymocytes. Thus, a series of defined synthetic fragments of a bacterial outer membrane component exhibits a pronounced mitogenic and polyclonally stimulating activity towards B lymphocytes. The substances will be valuable tools for more detailed investigations on the molecular mechanisms of B cell activation.