gebhart/patrepeval huggingface dataset:
Construction of phosphorylatable chimeric monoclonal antibody CC49 with a tyrosine srC kinase recognition site. (1998)

A phosphorylation site for a tyrosine kinase was introduced into chimeric monoclonal antibody CC49 (MAb-chCC49) by inserting a synthetic fragment (Tyr) encoding one tyrosine kinase phosphorylation site into an expression vector. The phosphorylation site was created by incorporating the predicted consensus sequences for phosphorylation by the tyrosine kinase at the carboxyl terminus of the heavy chain constant region of the MAb-chCC49. The resultant modified MAb-chCC49 (MAb-chCC49Tyr) was expressed and purified. The MAb-chCC49Tyr protein can be phosphorylated by the tyrosine Src kinase with [gamma-32P]ATP to high radiospecific activity. The 32P-labeled MAb-chCC49Tyr protein binds to cells expressing TAG-72 antigens. The introduction of phosphorylation sites into monoclonal antibodies (MAb) provides a new reagent for the diagnosis and treatment of cancer. This demonstrates that, as was described for the cAMP-dependent protein kinase site, a tyrosine phosphorylation site can also be used to introduce phosphorylation sites into proteins.
Simultaneous separation of basic and acidic proteins using 1‐butyl‐3‐methylimidazolium‐based ion liquid as dynamic coating and background electrolyte in capillary electrophoresis (2008)

1-Butyl-3-methylimidazolium tetrafluoroborate ionic liquids (1B-3MI-TFB ILs) were employed as a coating material and BGE in CE for simultaneous separation of basic and acidic proteins such as lysozyme, cytochrome C, ribonuclease A, albumin, and alpha-lactalbumin. 1B-3MI-TFB ILs effectively reversed the surface charges on the capillary inner surface, preventing the adsorption of positively charged proteins onto the silica surface, as well as associated with proteins, thus benefiting the separation efficiencies and reproducibility. Consequently, simultaneous baseline separation of five proteins was achieved within 14 min by using 10 mM of 1B-3MI-TFB ILs as dynamic coating and the only running electrolyte at the voltage of +20 kV. The proposed coating technique is simple, less time-consuming, reproducible, and also stable enough for proteins separation without the need of additives. Symmetrical peaks with efficiencies up to 670,000 plates/m were obtained. Recoveries of proteins with RSD (for migration times) of 0.23-0.42% (run-to-run) and 2.5-3.8% (day-to-day) were achieved, respectively. The applicability of the proposed method in proteins separation was evaluated by the separation of egg white samples.
Photonic Crystal Design with Mix and Match Unit Cells for Mode Manipulation (2019)

We report simulations and experimental measurement of a photonic crystal designed with mix and match unit cells. Our results enable extreme mode manipulation and potentially also phase and amplitude modification using non-traditional unit cell shapes.
One-dimensional frequency domain interpretationof complex compass gradient edge masks (1998)

The one-dimensional frequency domain interpretation of 3 × 3 compass gradient edge masks is extended to complex mask cases, making use of the circularity of the weight matrix. Complex compass Prewitt and Sobel edge masks are represented, in the spatial and frequency domains, by the two types of complex compass Frei-Chen edge mask.
Incensole acetate reduces depressive-like behavior and modulates hippocampal BDNF and CRF expression of submissive animals (2012)

Incensole acetate (IA), a constituent of Boswellia resin ('frankincense'), was previously demonstrated to exhibit an antidepressive-like effect in the Forced Swim Test (FST) in mice following single dose administration (50 mg/kg). Here, we show that acute administration of considerably lower dose (10 mg/kg) IA to selectively bred mice, showing prominent submissive behavior, exerted significant antidepressant-like effects in the FST. Furthermore, chronic administration of 1 or 5 mg/kg per day of IA for three consecutive weeks dose- and time-dependently reduced the submissiveness of the mice in the Dominant-Submissive Relationship test, developed to screen the chronic effect of antidepressants. This behavioral effect was concomitant to reduced serum corticosterone levels, dose-dependent down-regulation of corticotropin releasing factor and up-regulation of brain derived neurotrophic factor transcripts IV and VI expression in the hippocampus. These data suggest that IA modulates the hypothalamic-pituitary-adrenal (HPA) axis and influences hippocampal gene expression, leading to beneficial behavioral effects supporting its potential as a novel treatment of depressive-like disorders.
Robust face analysis using convolutional neural networks (2003)

Automatic face analysis has to cope with pose and lighting variations. Especially pose variations are difficult to tackle and many face analysis methods require the use of sophisticated normalization procedures. We propose a data-driven face analysis approach that is not only capable of extracting features relevant to a given face analysis task but is also robust with regard to face location changes and scale variations. This is achieved by deploying convolutional neural networks, which are either trained for facial expression recognition or face identity recognition. Combining the outputs of these networks allows us to obtain a subject dependent or personalized recognition of facial expressions.
Induction of glutathione content in murine melanocytes after transformation with c-H-ras oncogene (1991)

Malignant melanoma tumors are inherently resistant to anticancer drugs, yet the mechanism of this resistance is not understood. B16 melanoma, a spontaneous tumor which arose in the C57BL/6 mouse; BL6 melanoma, a highly invasive variant; and Mel-ab melanocytes, isolated from C57BL/6 mouse skin, were examined for intracellular glutathione (GSH) content. GSH was higher in BL6 and B16 cells than in Mel-ab cells, with the highest concentration in BL6 cells. Since GSH is thought to be involved in the resistance of many cells, including melanoma, to cytotoxic drugs, we determined whether intracellular GSH content was altered during transformation of Mel-ab cells. After transfection with pHO6T1 plasmid DNA, containing an activated c-H-ras oncogene flanked by transcriptional enhancers, 1.3% of successfully transfected Mel-ab melanocytes formed distinct colonies in soft agar, compared to 0.2% of cells transfected with control pHO6 plasmid without H-ras. Approximately 53% of the pHO6T1-transfected colonies isolated from soft agar grew in 5% CO2 in the absence of phorbol-12-myristate-13-acetate, a requirement for the extended growth of Mel-ab cells. Cells transfected with control pHO6 plasmid and non-transfected Mel-ab cells did not survive under these conditions. All of the isolated pHO6T1 transfected cells formed tumors when inoculated into C57BL/6 mice. Transformed cells had higher GSH content than non-transfected Mel-ab cells, whether expressed on a cellular or cell volume basis. Although the amount of oxidized glutathione was greater in the tumorigenic cells, this could not account for the overall increase in GSH. Neither glutathione S-transferase nor gamma-glutamyl transpeptidase activities were increased in the H-ras-transfected cells. Northern blot analysis confirmed H-ras-specific RNA in pHO6T1-transformed cells.
Directed lithiation of 4‐halopyridines: Chemoselectivity, regioselectivity and application to synthesis (1988)

Abstract 4‐Chloro and 4‐fluoropyridines were ortho ‐lithiated by n ‐butyllithium‐TMEDA chelate or lithium diiso‐propylamide at low temperature. The resulting 3‐lithio 4‐halopyridines were reacted with electrophiles which led to various 3,4‐disubstituted pyridines. The versatility of this functionalization is enhanced by the 4‐halogen reactivity towards nucleophiles such as water, methylate and amines. Some of the 3,4‐disubstituted synthons were annelated to naphthyridine, xanthone and coumarin or condensed to Hantsch‐ester or to “chlotrimazol” analogues. Lithiation of 4‐fluoropyridine led in one step to 3,4‐pyridyne, which was trapped by cycloaddition with furans.
Full Computational Reproducibility in Biological Science: Methods, Software and a Case Study in Protein Biology (2016)

Independent computational reproducibility of scientific results is rapidly becoming of pivotal importance in scientific progress as computation itself plays a more and more central role in so many branches of science. Historically, reproducibility has followed the familiar Popperian [38] model whereby theory cannot be verified by scientific testing, it can only be falsified. Ultimately, this implies that if an experiment cannot be reproduced independently to some satisfactory level of precision, its value is essentially unquantifiable; put brutally, it is impossible to determine its scientific value. The burgeoning presence of software in most scientific work adds a new and particularly opaque layer of complexity [29]. In spite of much recent interest in many scientific areas, emphasis remains more on procedures, strictures and discussion [12, 14, 16, 29, 30, 37, 41], reflecting the inexperience of most scientific journals when it comes to software, rather than the details of how computational reproducibility is actually achieved, for which there appear to be relatively few guiding examples [6, 10, 17]. After considering basic principles, here we show how full computational reproducibility can be achieved in practice at every stage using a case study of a multi-gigabyte protein study on the open SwissProt protein database, from data download all the way to individual figure by figure reproduction as an exemplar for general scientific computation.
Construction and Design of β-Sheets (1997)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTConstruction and Design of β-SheetsCatherine K. Smith and Lynne ReganView Author Information Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, P.O. Box 208114, New Haven, Connecticut 06520-8114 Cite this: Acc. Chem. Res. 1997, 30, 4, 153–161Publication Date (Web):April 15, 1997Publication History Received14 November 1996Published online15 April 1997Published inissue 1 April 1997https://pubs.acs.org/doi/10.1021/ar9601048https://doi.org/10.1021/ar9601048research-articleACS PublicationsCopyright © 1997 American Chemical SocietyRequest reuse permissionsArticle Views1001Altmetric-Citations160LEARN 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 SUBJECTS:Hydrophobicity,Monomers,Peptides and proteins,Protein structure,Stability Get e-Alerts
Assessment and pruning of hierarchical model based clustering (2003)

The goal of clustering is to identify groups in a dataset. The basic idea of model-based clustering is to approximate the data density by a mixture model, typically a mixture of Gaussians, and to estimate the parameters of the component densities, the mixing fractions, and the number of components from the data. The number of groups in the data is then taken to be the number of mixture components, and the observations are partitioned into clusters (estimates of the groups) using Bayes' rule. If the groups are well separated and look Gaussian, then the resulting clusters will indeed tend to be distinct in the most common sense of the word - contiguous, densely populated areas of feature space, separated by contiguous, relatively empty regions. If the groups are not Gaussian, however, this correspondence may break down; an isolated group with a non-elliptical distribution, for example, may be modeled by not one, but several mixture components, and the corresponding clusters will no longer be well separated. We present methods for assessing the degree of separation between the components of a mixture model and between the corresponding clusters. We also propose a new clustering method that can be regarded as a hybrid between model-based and nonparametric clustering. The hybrid clustering algorithm prunes the cluster tree generated by hierarchical model-based clustering. Starting with the tree corresponding to the mixture model chosen by the Bayesian Information Criterion, it progressively merges clusters that do not appear to correspond to different modes of the data density.
Ultrafast Charge Dynamics Initiated by High-Intensity, Ultrashort Laser-Matter Interaction (2006)

The interaction of high‐intensity laser pulses with matter releases instantaneously ultra‐large currents of highly energetic electrons, leading to the generation of highly‐transient, large‐amplitude electric and magnetic fields. We report results of recent experiment in which such charge dynamics have been studied by using proton probing techniques able to provide maps of the electrostatic fields with high spatial and temporal resolution. The dynamics of ponderomotive channelling in underdense plasmas have been studied in this way, as also the processes of Debye sheath formation and MeV ion front expansion at the rear of laser‐irradiated thin metallic foils. An application employing laser‐driven impulsive fields for energy‐selective ion beam focusing is also presented.
Effect of temperature on the protonation constants of 2,2′:6′,2″-terpyridyl and the stability constant of the bis(2,2′:6′,2″-terpyridyl)iron(II) cation (1981)

The concentration-based association constants (pKa1 and pKa2) on the molar scale between 2,2′:6′,2-terpyridyl (terpy) and hydrogen ion, giving the cations [terpy H]+ and [terpy H2]2+, have been determined in aqueous solution at various temperatures between 298 and 472 K and at an ionic strength 0.05 mol dm–3 from spectrophotometric data. The computer program SQUAD was used to give overall equilibrium constants for the association reactions between protons and free base yielding the base cations. The constants for these reactions (log10KH1 and log10βH2) are related to pKa values through pKa1= log10KH1 and pKa2= log10βH2–pKa1. Formation of the triprotonated species [terpy H3]3+ was negligible under the prevailing experimental conditions. The overall concentration stability constant (log10β2) of the bis(2,2′:6′,2″-terpyridyl)iron(II) cation has been determined over the same temperature range with I= 0.1 mol dm–3. The constants decrease regularly with temperature and plots of pKa1, pKa2 and log10β2 against 1/T were linear within experimental error. The derived thermodynamic quantities for the association reactions, ΔH and ΔS, are quoted over the experimental temperature ranges.
Kapitel VI: Technische Hochschule Hannover – 1954 bis 1960 Umformtechnik (2014)

No AccessOtto Kienzle – Systematiker der FertigungstechnikFeb 2014Kapitel VI: Technische Hochschule Hannover – 1954 bis 1960 UmformtechnikRita Seidel, Günter Spur, Hans Kurt TönshoffRita Seidel, Günter Spur, Hans Kurt Tönshoffhttps://doi.org/10.3139/9783446433694.006SectionsAboutPDF ToolsAdd to FavoritesDownload CitationTrack CitationsCopy LTI LinkPDF key 'share (en)' returned an object instead of string.FacebookTwitterEmailLinkedIn previous chapternext chapter FiguresReferencesRelatedDetails 2014Pages: 457-503Print ISBN: 978-3-446-43033-4eISBN: 978-3-446-43369-4 Copyright & Permissions© 2014 Carl Hanser Verlag GmbH & Co. KGPDF downloadLoading ...
Preliminary design of a liquid crystal-based reflectarray antenna for beam-scanning in THz (2013)

A 50.22 × 48.6 mm beam-scanning reflectarray based on liquid crystals (LCs) has been designed to operate over a bandwidth of 5.5% in the low THz frequency range. The structure consists of a single-layer multi-resonant periodic array with unit-cells composed of three parallel unequal length dipoles. The gap between the array and ground plane is filled with electronically tunable LC which exhibits a permittivity value that is controlled by a low frequency bias signal. The simulations demonstrate that the beam can be scanned over an angular range of ±10° yielding a gain greater than 35 dBi and maximum sidelobe levels of 25 dB from 335 to 354 GHz.
[Internal hemorrhages associated with fractures of the pelvic girdle. Importance of early stabilization using an external fixator]. (1993)

Pelvic ring injuries due to high-energy forces are among the most serious involving the musculoskeletal system. Life-threatening hemorrhage, local and distant associated injuries, deformity, pain and diminished functional capacity are all potential problems for a patient with a disrupted pelvis. There is a clear correlation between total blood loss, incidence of associated injuries, final functional result and the type of pelvic ring injury. Between January 1987 and December 1990, 66 patients with an unstable lesion, type B or type C in Tie's classification, were treated in the University Hospital Gasthusiberg of the Katholieke Universiteit Leuven. In 42 cases, primary stabilization was achieved by means of an external fixator, of the type "Monofixateur". The overall mortality rate was less than 7%, and 53 patients could be seen for follow-up 6 months to 4 years after injury. Our findings confirm that compared to type B lesions there is a higher incidence of pain, permanent deformity and diminished functional capacity in type C lesions (P < 0.05). The external fixator used in the immediate post-injury period provides an effective splint that reduces bleeding from bone and veins but cannot maintain reduction in lesions with rotational and vertical instability. In these cases, a semi-elective internal fixation, after defining the exact pathoanatomy by means of a CT-scan, should be performed in selected centers.
Multiple functions of human single-stranded-DNA binding protein in simian virus 40 DNA replication: single-strand stabilization and stimulation of DNA polymerases alpha and delta. (1989)

The human single-stranded-DNA binding protein (human SSB) is required for simian virus 40 (SV40) DNA replication in vitro. SV40 large tumor antigen and human SSB can support extensive unwinding of SV40 origin-containing DNA in the presence of ATP and a topoisomerase that relieves positive superhelicity. Although SSBs from viral and prokaryotic sources substituted for human SSB in the DNA-unwinding reaction, they did not substitute in the replication of SV40 DNA. The specificity for human SSB in SV40 DNA replication can be explained, at least in part, by the finding that DNA polymerase alpha was stimulated 10-fold by human SSB but not by other SSBs. Human SSB also stimulated proliferating-cell nuclear antigen-dependent DNA polymerase delta; however, other SSBs stimulated this polymerase as well.
The Role of Natural Products and Their Multitargeted Approach to Treat Solid Cancer (2022)

Natural products play a critical role in the discovery and development of numerous drugs for the treatment of various types of cancer. These phytochemicals have demonstrated anti-carcinogenic properties by interfering with the initiation, development, and progression of cancer through altering various mechanisms such as cellular proliferation, differentiation, apoptosis, angiogenesis, and metastasis. Treating multifactorial diseases, such as cancer with agents targeting a single target, might lead to limited success and, in many cases, unsatisfactory outcomes. Various epidemiological studies have shown that the steady consumption of fruits and vegetables is intensely associated with a reduced risk of cancer. Since ancient period, plants, herbs, and other natural products have been used as healing agents. Likewise, most of the medicinal ingredients accessible today are originated from the natural resources. Regardless of achievements, developing bioactive compounds and drugs from natural products has remained challenging, in part because of the problem associated with large-scale sequestration and mechanistic understanding. With significant progress in the landscape of cancer therapy and the rising use of cutting-edge technologies, we may have come to a crossroads to review approaches to identify the potential natural products and investigate their therapeutic efficacy. In the present review, we summarize the recent developments in natural products-based cancer research and its application in generating novel systemic strategies with a focus on underlying molecular mechanisms in solid cancer.
Self-Reported Symptoms After Initiation of a Protease Inhibitor in HIV-Infected Patients and Their Impact on Adherence to HAART (2001)

Patients reporting a high number of symptoms soon after HAART initiation are at higher risk of future nonadherence and could be targeted for interventions to achieve good levels of adherence and to improve treatment outcome.
Intracellular and cell-to-cell spread of Listeria monocytogenes involves interaction with F-actin in the enterocytelike cell line Caco-2 (1990)

Listeria monocytogenes penetrates and multiplies within professional phagocytes and other cells such as the Caco-2 human enterocytelike cell line. Listeriolysin O, a membrane-damaging cytotoxin accounts for intracellular multiplication through lysis of the membrane-bound phagocytic vacuole. This work demonstrates that once released within the cytosol, L. monocytogenes acquires the capacity to spread intracellularly and infect adjacent cells by interacting with host cell microfilaments. Such evidence was obtained by using drugs which disrupt the cell cytoskeleton. Nocodazole, which blocks polymerization of microtubules, did not affect intracellular spread, whereas cytochalasin D, which blocks polymerization of G-actin, inhibited the intracellular motility of the bacteria. By using fluorescence staining with 7-nitrobenz-2-oxa-1,3-diazole-phallacidin (NBD-phallacidin), transmission electron microscopy, and immunogold labeling, direct evidence was obtained that intracellular bacteria were enveloped with a thick layer of F-actin. Within 2 h after entry, it was demonstrated by confocal microscopy that bacteria were following highly organized routes corresponding to stress fibers. Four hours after entry, some bacteria presented random movements which could be seen by the presence of a large trail of F-actin. Such movements also caused protrusions which deeply penetrated adjacent cells and resulted in the formation of vacuoles limited by a double membrane. After subsequent lysis of these membranes, bacteria released within the cytoplasm were able to multiply and invade new cells. In contrast, an hly::Tn1545 mutant of the wild-type microorganism demonstrated almost no intracellular spread. Only a few bacteria displaying delayed lysis of the phagocytic vacuole behaved like the wild-type strain. Hemolysin-mediated lysis of the phagocytic vacuole and subsequent interaction with host cell microfilaments may represent a major virulence factor allowing tissue colonization during listeriosis.