gebhart/patrepeval huggingface dataset:
DNA replication initiates non-randomly at multiple sites near the c-myc gene in HeLa cells (1996)

The origin of replication of the c-myc gene in HeLa cells was previously identified at low resolution within 3.5 kb 5' to the P1 promoter, based on replication fork polarity and the location of DNA nascent strands. To define the initiation events in the c-myc origin at higher resolution the template bias of nascent DNAs in a 12 kb c-myc domain has been analyzed by hybridization to strand specific probes. Strong switches in the asymmetry of nascent strand template preference confirm that replication initiates non-randomly at multiple sites within 2.4 kb 5' to the c-myc P1 promoter, and at other sites over a region of 12 kb or more. The strongest template biases occur in the 2.4 kb region 5' of the P1 promoter, shown earlier to contain sequences which allow the autonomous semiconservative replication of c-myc plasmids. An asymmetric pyrimidine heptanucleotide consensus sequence has been identified which occurs 12 times in the c-myc origin zone, and whose polarity exactly correlates with the polarity of nascent strand synthesis.
Electromotive Administration of Oxybutynin into the Human Bladder Wall (1997)

EMDA enhances oxybutynin administration into viable bladder wall and reduces the variability in drug delivery rate.
DNA Gridiron Nanostructures Based on Four-Arm Junctions (2013)

Engineering wireframe architectures and scaffolds of increasing complexity is one of the important challenges in nanotechnology. We present a design strategy to create gridiron-like DNA structures. A series of four-arm junctions are used as vertices within a network of double-helical DNA fragments. Deliberate distortion of the junctions from their most relaxed conformations ensures that a scaffold strand can traverse through individual vertices in multiple directions. DNA gridirons were assembled, ranging from two-dimensional arrays with reconfigurability to multilayer and three-dimensional structures and curved objects.
Localization of NCAM on NCAM‐B‐expressing cells with inhibited migration in collagen (1995)

The extracellular matrix is a key element in neuronal development and tumour invasion, providing a substratum which sustains the adhesion and migration of cells. In order to study interactions between the neural cell adhesion molecule (NCAM) and collagen, we transfected mouse L cells with cDNA encoding the human transmembrane NCAM isoform of 140 kDa (NCAM-B). An L-cell/collagen type I system was used to study the influence of NCAM expression on in vitro invasion. We here report that migration of NCAM-expressing cells in collagen was inhibited compared to that of NCAM-negative cells transfected with the empty vector. Immunofluorescence confocal laser scanning microscopy (CLSM) and immunogold electron microscopy using anti-human NCAM antibodies demonstrated a heterogeneous distribution of NCAM on the plasma membrane of transfected L cells grown on collagen. NCAM was preferentially located at the surface of broad cytoplasmic protrusions and slender extensions, some of which were facing the collagen. This was in contrast to the homogeneous surface distribution of NCAM on cells grown on plastic. These data suggest that NCAM and collagen type I interact, and that this might lead to the migration inhibition of NCAM-expressing cells.
A place for everything (2010)

We have developed an easy, reliable two-step method for the insertion of large DNA fragments into any desired location in the E. coli chromosome. The method is based on the recombineering of a small (∼1.3 kbp) "Landing Pad" into the chromosome at the insertion site, to which the large construct is subsequently delivered via I-SceI endonuclease excision from a donor plasmid. To demonstrate the power of this method, we here show the insertion of a fragment containing the entire lac operon (∼9 kbp) into four predefined novel locations in the E. coli chromosome, a feat not possible with existing technologies. In addition, the chromosomal breaks induced by landing pad excision provide sufficient selective pressure that positive selection by antibiotics is unnecessary, making precise, exact insertion without extraneous sequence possible.
TS Eliot: Modernism and religion in The Waste Land, Ash Wednesday and The Hollow Men (2014)

The human religious experience is a key motif in Eliot's poetry, sitting at the heart of his work before and after his public declaration of Anglicanism when he took British citizenship in 1927. In this essay I argue that Eliot's poetry demonstrates the archetypically modernist ideas of fragmentation, cultural dislocation and spiritual fragmentation in his treatment of religion, while continually placing these in tension with the potential for structural coherence and spiritual redemption. Although many commentators make much of this personal decision to a new country and God, Eliot's personal religion is tied up with his own comments on the personality1 of the poet, and as such largely irrelevant to our enquiry, namely the treatment of religion in his modernist poetry itself. To closely look at how Eliot represents religion, and importantly how this representation changes in his poetry as he moves on from the high modernism of The Waste Land (WL) in 1922, transitioning through a poem like The Hollow Men (HM) in 1925 to the post-conversion poetry of Ash Wednesday (AW) in 1930. We should firstly look at Eliot's extensive use of fragmented incantatory prose and epiphanic religious symbolism in his writing. Further, we will investigate how binary notions of desert/garden, wet/dry are used extensively to as metaphors of the human spiritual condition. Finally we will explore Eliot's representation of spiritual redemption and hope, and how highlights the modern disconnection from any sense of a true connection from God by looking at the voices and, importantly, silences of the various speakers who appear to guide or beguile the unwary.
Prediction of Cell Penetrating Peptides by Support Vector Machines (2011)

Cell penetrating peptides (CPPs) are those peptides that can transverse cell membranes to enter cells. Once inside the cell, different CPPs can localize to different cellular components and perform different roles. Some generate pore-forming complexes resulting in the destruction of cells while others localize to various organelles. Use of machine learning methods to predict potential new CPPs will enable more rapid screening for applications such as drug delivery. We have investigated the influence of the composition of training datasets on the ability to classify peptides as cell penetrating using support vector machines (SVMs). We identified 111 known CPPs and 34 known non-penetrating peptides from the literature and commercial vendors and used several approaches to build training data sets for the classifiers. Features were calculated from the datasets using a set of basic biochemical properties combined with features from the literature determined to be relevant in the prediction of CPPs. Our results using different training datasets confirm the importance of a balanced training set with approximately equal number of positive and negative examples. The SVM based classifiers have greater classification accuracy than previously reported methods for the prediction of CPPs, and because they use primary biochemical properties of the peptides as features, these classifiers provide insight into the properties needed for cell-penetration. To confirm our SVM classifications, a subset of peptides classified as either penetrating or non-penetrating was selected for synthesis and experimental validation. Of the synthesized peptides predicted to be CPPs, 100% of these peptides were shown to be penetrating.
Multitasked closed-loop control in anesthesia (2001)

Automatic controllers capable of regulating multiple patient outputs for higher-quality anesthesia treatment are described. The first steps toward the development of an autonomous anesthesia system at the authors' laboratory are presented. The controllers are implemented on a real-time platform and tested on humans to quantify the benefits that may result from their use in routine practice. To date, the staff at the University Hospital in Bern can rely on controllers that regulate six different patient outputs. Overall, more than 150 patients were treated with closed-loop controllers during general anesthesia. These controllers regulate O/sub 2/, CO/sub 2/, and inspired and expired anesthetic gas concentrations in the breathing system, as well as mean arterial pressure and depth of hypnosis through bispectral index.
[Extraction and purification of acidic mucopolysaccharide from Holothuria atra]. (1999)

Mucopolyaccharide with molecular weight of 10253 Da was extracted and purified from fresh Holothuria atra Jaeger by means of enzymic and alkaline hydrolysis, potassium acetate and ethanol fractional precipitation. It was tested to be purified ingredient with agarose electrophoresis. The percentage content of galactosamine, glucuronic acid, fucose and sulfate in the mucopolysaccharide was 16.12%, 17.88%, 11.66% and 23.52% respectively.
Sociocultural work and Community Music in Germany (2016)

Abstract This article is based on a version published over ten years ago in the Handbuch Musik in der Sozialen Arbeit/Handbook of Music in Social Work (Theo Hartogh and Hans-Hermann Wickel, 2004). The international discourse about Community Arts/Music was then still largely unknown in Germany. Nationally, the subject was classified as Soziokultur/social culture within which social work was the mainstay. The opening hypothesis of the article, which has since been updated, proposed that developments in national Soziokultur and international community music were running a similar course and pursuing similar goals. In the following text, the developments in the musical sub-division of German Soziokultur are reconstructed and presented in relation to the observations of Higgins in Britain. It will subsequently be examined, whether the term community music is appropriate to describe the theory and practice of social music-making in Germany.
Adipose-specific overexpression of GLUT-4 in transgenic mice alters lipoprotein lipase activity (1996)

Transgenic mice overexpressing GLUT-4 selectively in adipose tissue using the aP2 promoter/enhancer develop obesity, enhanced glucose tolerance, and increased insulin sensitivity. The current study was designed to determine whether altering glucose transport affects lipoprotein lipase (LPL) activity. Female transgenic mice (10-12 mo old) have increased parametrial fat pad weight, adipocyte size, total body lipid and fasting plasma triglycerides, fatty acids, and glycerol compared with nontransgenics. Stimulation of LPL activity by feeding is blunted in parametrial and perirenal fat from 15- and 22-fold in nontransgenic mice to three- to sevenfold in transgenics. LPL activity in the fed state in transgenic mice is reduced 60-75% in fat. In heart and skeletal muscle of transgenic mice, LPL activity in the fasted state is 55-65% lower than in nontransgenics and feeding induces an unexpected rise in LPL activity. Muscle LPL activity is strongly and inversely correlated with glucose transport in adipocytes (r = -0.942, P < 0.005), which is increased 15- to 27-fold in the basal state and 4.5- to 6.9-fold in the insulin-stimulated state in transgenics. Whereas stimulation of adipose LPL may be blunted by lower plasma insulin levels in transgenics, fasting muscle LPL may be suppressed by elevated plasma lipids. Thus altering the partitioning of glucose between adipose tissue and muscle alters a critical step for the partitioning of lipoprotein fatty acids between these tissues.
Predicting amino acid sequences of the antibody human V H chains from its first several residues (1998)

A new method for classification of Ig sequences is suggested. The defining characteristic of a class is presence of particular residues at several class-determining positions. Sequences within a class follow the same amino acid pattern, i.e., residues at identical positions are, in an overwhelming majority of sequences of that class, identical or chemically related. Thus, once the class of a sequence is determined, one can predict the residue(s) at almost any position in the sequence. In this paper, results of analysis of 1,172 human heavy chains are presented. It was shown that a sequence can be assigned to one of six classes depending on which residues are found at its positions 1, 3, 5, 6, 7, 9, 10, 12, and 13. It is important to note that it is possible to achieve same six-class classification of the human heavy chains on the basis of a different set of positions found not at the beginning but near the end of the sequence (around position 80). For every class, an amino acid pattern of an entire sequence (complementarity determining regions excepting) has been determined. Our approach allowed us to reconstruct the incomplete human heavy chains in which residues at certain positions at the beginning or end of the chain are known. We developed a software tool for analysis, classification, and prediction of residues in sequences of the Ig family.
Effect of (E)-5-(2-Bromovinyl)-2'-deoxyuridine on Several Parameters of Epstein--Barr Virus Infection (1984)

The selective and potent anti-herpesvirus drug, (E)-5-(2-bromovinyl)-2'-deoxyuridine (BVdU), has been examined for its inhibitory effects on several parameters of Epstein-Barr virus (EBV) infection in the lymphoblastoid cell lines Raji, P3HR-1, B-95-8 and P3 hybrid cells (a human embryo oropharyngeal cell line fused with a nasopharyngeal carcinoma cell line). At a dosage of 0.03 to 0.1 mM, BVdU caused a marked inhibition of (i) spontaneous viral capsid antigen (VCA) expression in B-95-8 and P3 hybrid cells, (ii) VCA expression and DNA synthesis in B-95-8 cells induced with croton oil and n-butyrate, (iii) early antigen (EA) expression and DNA synthesis in Raji cells superinfected with EBV, and (iv) VCA expression and DNA synthesis in B-95-8 cells superinfected with EBV. In its inhibitory effects on these various parameters of EBV infection, BVdU appears to be comparable to acyclovir [9-(2-hydroxyethoxymethyl)guanine], another selective anti-herpesvirus drug which has been previously recognized as an effective inhibitor of EBV replication.
Culture of Epithelial Cells (2002)

Contributors. Preface (R. Freshney & M. Freshney). Preface to the First Edition (R. Freshney). List of Abbreviations. Introduction (R. Freshney). Cell Interaction and Epithelial Differentiation (N. Maas Szabowski, et al.). The Epidermis (E. Parkinson & W. Yeudall). Culture of Human Mammary Epithelial Cells (M. Stampfer, et al.). Culture of Human Cervical Epithelial Cells (M. Stanley). Human Prostatic Epithelial Cells (D. Peehl). Human Oral Epithelium (R. Grafstrom). Normal Human Bronchial Epithelial Cell Culture (J. Wise & J. Lechner). Isolation and Culture of Pulmonary Alveolar Epithelial Type II Cells (L. Dobbs & R. Gonzalez). Isolation and Culture of Intestinal Epithelial Cells (C. Booth & J. O Shea). Isolation and Culture of Animal and Human Hepatocytes (C. Guguen Guillouzo). Culture of Human Urothelium (J. Southgate, et al.). Other Epithelial Cells (R. Freshney). List of Suppliers. Index.
Synthesis and relative stereochemical assignment of the four isomeric cyclopropane-bridged tricyclo[3.2.2.02,4]nonan-6-ols (1974)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSynthesis and relative stereochemical assignment of the four isomeric cyclopropane-bridged tricyclo[3.2.2.02,4]nonan-6-olsPaul E. Schueler and Yorke E. RhodesCite this: J. Org. Chem. 1974, 39, 14, 2063–2069Publication Date (Print):July 1, 1974Publication History Published online1 May 2002Published inissue 1 July 1974https://pubs.acs.org/doi/10.1021/jo00928a020https://doi.org/10.1021/jo00928a020research-articleACS PublicationsRequest reuse permissionsArticle Views60Altmetric-Citations14LEARN 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
Antibodies raised against N'-terminal Pseudomonas aeruginosa flagellin prevent mortality in lethal murine models of infection (2005)

The goal of this study was to investigate if antibodies raised against N'-terminal Pseudomonas aeruginosa (Pa) flagellin could afford protection in two lethal mouse models of Pa infection. To that end, rabbit polyclonal antibodies were generated against the N'-terminal domains (amino acids 1-156) of recombinant Pa01 or Salmonella muenchen flagellins, termed anti-N'-fla-b and anti-N'-fla-Sm, respectively. In vitro, anti-N'-fla-b but not anti-N'-fla-Sm IgG specifically recognized recombinant and Pa endogenous flagellin type b proteins, total bacterial lysates of Pa type b, and inhibited Pa01 invasion into A549 cells. In vivo, administration of anti-N'-fla-b afforded a remarkable improvement in survival in lethal peritonitis (90% vs. 12% in control; p<0.001) and burn infection (83% vs. 8-17% in control groups; p<0.005) Pa models. These findings would suggest that the N'-terminal domain of Pa flagellin harbors critically important bioactive domains and that an antibody-targeted, neutralization approach directed at this region could provide a novel therapeutic strategy to combat Pa infection.
TCP-AuthN: TCP Inline Authentication to Enhance Network Security in Grid Environments (2009)

To secure communication in Grids many efforts have been made regarding authentication and authorization. Due to some application requirements it is up to now recommended to open wide port ranges on firewalls. This configuration is commonly accepted as insecure. We present an approach to enhance the security of firewalled Grid components by a new method to dynamically authorize TCP connections on firewalls. The authorization decision relies on the authenticated identity of users or conveyed attribute assertions. Authentication information is transferred within the TCP three-way-handshake. To distinguish the authentication information from application data a new TCP option tcpauthn is introduced. The new method TCP-AuthN leads to a new paradigm in firewall operation as the firewall comes to the final decision to allow or reject/deny a connection after the third segment of the TCP three-way-handshake is verified. The firewall denies/rejects each connection on an individual basis depending on the user's proven identity.
Acid- and Salt-Triggered Multifunctional Poly(propylene imine) Dendrimer as a Prospective Drug Delivery System (2004)

A novel dendrimeric compound is designed with the objective of simultaneously addressing issues commonly encountered in drug delivery, i.e., stability in biological milieu as well as targeting. For this purpose, a multifunctional dendrimeric system derived from diaminobutane poly(propylene imine) dendrimers (DAB) is prepared bearing at its external surface poly(ethylene glycol) chains and guanidinium moieties. For these moieties, it has been established that they exhibit protective and targeting properties, respectively. The release of encapsulated compounds is triggered by titration with acids followed by the addition of sodium chloride solution. Specifically for pyrene, the solubilization site of which can be clearly traced, protonation leads to a distribution between the core and the poly(ethylene glycol) chains in the periphery of the dendrimer while it is released to the aqueous bulk solution by the addition of sodium chloride. The release of betamethasone valerate is also triggered by the addition of sodium chloride solution.
The AEIOU hypermedia project (2002)

Austria is celebrating its millennium in 1996: although Austria is much older than 1000 years, the German name for Austria (Ostarici) is first found in a written document dated 996. For this celebration, one of the most ambitious networked multimedia presentations ever is currently being developed. For the name of the project, the acronym AEIOU has been chosen: one may read this as "Annotatable Electronic Interactive Ostarici Universal presentation" or as "Austria Erit In Orbe Ultima" ("Austria will be the best in the world"). Most aspects of Austria are covered by compiling a 50 GByte database that will be available as a series of CD-ROMs, as public kiosk applications and as a multi-platform presentation via the Internet. This paper describes the aim of the project, mentions some of the more unusual details and reports on the status of the development.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Horizontal Radial Drilling System (1985)

ABSTRACT A high pressure, water jet drilling system has been developed using a new force system to concurrently drill a bore hole and place a metal tube in the bore hole. The first commercial application has been horizontal radials for shallow heavy oil reservoirs. Many radials may be placed at the same elevation. Logging, and completion techniques have been developed.
Constructing application-specific heterogeneous embedded architectures from custom HW/SW applications (1996)

Article Constructing application-specific heterogeneous embedded architectures from custom HW/SW applications Share on Authors: Steven Vercauteren IMEC, Kapeldreef 75, B-3001 Leuven, Belgium IMEC, Kapeldreef 75, B-3001 Leuven, BelgiumView Profile , Bill Lin IMEC, Kapeldreef 75, B-3001 Leuven, Belgium IMEC, Kapeldreef 75, B-3001 Leuven, BelgiumView Profile , Hugo De Man IMEC, Kapeldreef 75, B-3001 Leuven, Belgium IMEC, Kapeldreef 75, B-3001 Leuven, BelgiumView Profile Authors Info & Claims DAC '96: Proceedings of the 33rd annual Design Automation ConferenceJune 1996 Pages 521–526https://doi.org/10.1145/240518.240617Online:01 June 1996Publication History 34citation320DownloadsMetricsTotal Citations34Total Downloads320Last 12 Months4Last 6 weeks0 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 AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteGet Access
Discovery of IDO1 Inhibitors: From Bench to Bedside (2017)

Small-molecule inhibitors of indoleamine 2,3-dioxygenase-1 (IDO1) are emerging at the vanguard of experimental agents in oncology. Here, pioneers of this new drug class provide a bench-to-bedside review on preclinical validation of IDO1 as a cancer therapeutic target and on the discovery and development of a set of mechanistically distinct compounds, indoximod, epacadostat, and navoximod, that were first to be evaluated as IDO inhibitors in clinical trials. As immunometabolic adjuvants to widen therapeutic windows, IDO inhibitors may leverage not only immuno-oncology modalities but also chemotherapy and radiotherapy as standards of care in the oncology clinic. <i>Cancer Res; 77(24); 6795-811. ©2017 AACR</i>.