gebhart/patrepeval huggingface dataset:
Induction of an exceptionally high-level, nontranslated, Epstein-Barr virus-encoded polyadenylated transcript in the Burkitt's lymphoma line Daudi (1997)

An Epstein-Barr virus transcript (designated D-HIT [Daudi high-level-inducible transcript]), constitutively expressed at low levels in the Burkitt's lymphoma (BL)-derived cell line Daudi, can be induced with tetradecanoylphorbol acetate or n-butyrate or, in combination, to about 1% of the levels of high-molecular-weight RNAs in cells. The transcript can also be induced in some other EBV-positive BL-derived cells but to a much lesser extent, particularly in lines that can give rise to productive infection. D-HIT is viral in origin and is composed largely of repetitive sequence. It is polyadenylated but mainly nuclear in location and is highly structured, sensitive only to double-strand-specific RNase. It is endogenously expressed in interferon-sensitive Daudi strains but not in an insensitive strain, Daudi 100K. D-HIT contains a part of a viral open reading frame (designated LF3, and deleted in the prototype B95-8 strain), using an internal polyadenylation (AAUAAA) sequence as a signal to specify processing of its 3' end. In Daudi cells, the promoter contains a putative hinge structure, as found in some interferon-inducible genes and c-myc. Since D-HIT lies adjacent to, probably even encompassing, one of the two viral lytic origins (D(R)) of replication, it may have a role in the regulation of DNA replication. Alternatively, or in addition via its double-stranded structure, D-HIT may play a regulatory role in interferon pathways. Its promoter could be of value for studying expression in constructions containing heterologous genes.
Analysis of Lipooligosaccharide Biosynthesis in the <i>Neisseriaceae</i> (2001)

Neisserial lipooligosaccharide (LOS) contains three oligosaccharide chains, termed the alpha, beta, and gamma chains. We used Southern hybridization experiments on DNA isolated from various Neisseria spp. to determine if strains considered to be nonpathogenic possessed DNA sequences homologous with genes involved in the biosynthesis of these oligosaccharide chains. The presence or absence of specific genes was compared to the LOS profiles expressed by each strain, as characterized by their mobilities on sodium dodecyl sulfate-polyacrylamide gel electrophoresis gel and their reactivities with various LOS-specific monoclonal antibodies. A great deal of heterogeneity was seen with respect to the presence of genes encoding glycosyltransferases in Neisseria. All pathogenic species were found to possess DNA sequences homologous with the lgt gene cluster, a group of genes needed for the synthesis of the alpha chain. Some of these genes were also found to be present in strains considered to be nonpathogenic, such as Neisseria lactamica, N. subflava, and N. sicca. Some nonpathogenic Neisseria spp. were able to express high-molecular-mass LOS structures, even though they lacked the DNA sequences homologous with rfaF, a gene whose product must act before gonococcal and meningococcal LOS can be elongated. Using a PCR amplification strategy, in combination with DNA sequencing, we demonstrated that N. subflava 44 possessed lgtA, lgtB, and lgtE genes. The predicted amino acid sequence encoded by each of these genes suggested that they encoded functional proteins; however, structural analysis of LOS isolated from this strain indicated that the bulk of its LOS was not modified by these gene products. This suggests the existence of an additional regulatory mechanism that is responsible for the limited expression of these genes in this strain.
Fibrosis in Crohn’s Disease (2012)

Crohn’s disease (CD) and ulcerative colitis (UC) are chronic, relapsing inflammatory gastro‐ intestinal diseases which often onset in young adulthood. Unlike in UC, where inflamma‐ tion is limited to the mucosa, CD patients frequently develop transmural disease which can extend to involve the muscularis and serosa. While inflammatory disease accounts for much of the symptomatology associated with CD, significant morbidity results from fibrotic le‐ sions and their resulting complications.
Common Mistakes when Applying Computational Intelligence and Machine Learning to Stock Market modelling (2012)

For a number of reasons, computational intelligence and machine learning methods have been largely dismissed by the professional community. The reasons for this are numerous and varied, but inevitably amongst the reasons given is that the systems designed often do not perform as expected by their designers. The reasons for this lack of performance is a direct result of mistakes that are commonly seen in market-prediction systems. This paper examines some of the more common mistakes, namely dataset insufficiency; inappropriate scaling; time-series tracking; inappropriate target quantification and inappropriate measures of performance. The rationale that leads to each of these mistakes is examined, as well as the nature of the errors they introduce to the analysis / design. Alternative ways of performing each task are also recommended in order to avoid perpetuating these mistakes, and hopefully to aid in clearing the way for the use of these powerful techniques in industry.
Plasmon-Induced Charge Transfer: Challenges and Outlook (2019)

The decay of a surface plasmon, a collective electron oscillation at the surface of a metal, can generate hot charge carriers that may be transferred to an adjacent semiconductor. This plasmon-induced charge transfer process can be used to enhance photocatalysis, to create photodetectors, or to drive selective photochemistry. However, the charge transfer efficiency in many fabricated devices remains too low for practical applications, typically <1%. In this Perspective, I discuss critical aspects of designing plasmonic systems for improved performance and highlight important findings for maximizing the transfer efficiency. In particular, I draw attention to the article by Ma and Gao in this issue of <i>ACS Nano</i> that describes using real-time time-dependent density functional theory to give a detailed and informative look at the charge transfer dynamics at a TiO<sub>2</sub>-Ag nanocluster interface.
Cloning and nucleotide sequence of the <i>csp1</i> gene encoding PS1, one of the two major secreted proteins of <i>Corynebacterium glutamicum</i>: the deduced <i>N</i>‐terminal region of PS1 is similar to the <i>Mycobacterium</i> antigen 85 complex (1992)

Two proteins, PS1 and PS2, were detected in the culture medium of Corynebacterium glutamicum and are the major proteins secreted by this bacterium. No enzymatic activity was identified for either of the two proteins. Immunologically cross-reacting proteins were found in a variety of C. glutamicum strains but not in the coryneform Arthrobacter aureus. The gene encoding PS1, csp1, was cloned in lambda gt11 using polyclonal antibodies raised against PS1 to screen for producing clones. The csp1 gene was expressed in Escherichia coli, presumably from its own promoter, and directed the synthesis of two proteins recognized by anti-PS1 antibodies. The major protein band, of lower M(r), was detected in the periplasmic fraction. It had the same M(r) as the PS1 protein band detected in the supernatant of C. glutamicum cultures and presumably corresponds to the mature form of PS1. The minor protein band appears to be the precursor form of PS1. The nucleotide sequence of the csp1 gene was determined and contained an open reading frame encoding a polypeptide with a calculated molecular weight of 70,874, with a putative signal peptide with a molecular weight of 4411. This is consistent with the M(r) determined for PS1 from C. glutamicum culture supernatant and E. coli whole-cell extracts. The NH2-half of the deduced amino acid is similar (about 33% identical residues and 52% including similar residues) to the secreted antigen 85 protein complex of Mycobacterium. The csp1 gene in C. glutamicum was disrupted without any apparent effect on growth or viability.
Ligand Binding to Tandem G Quadruplexes from Human Telomeric DNA (2008)

The beads-on-a-string structure of telomeric overhang, as illustrated here, was confirmed by studying the binding behaviours of the G-quadruplex binders sanguinarine and TMPyP4 to long human telomeric sequences by using a DNA polymerase stop assay. Additionally, a novel mode of ligand binding to long telomeric sequences was further suggested, in which ligands favourably bind between tandem G quadruplexes leading to a cooperative stacking interaction. Detailed facts of importance to specialist readers are published as "Supporting Information". Such documents are peer-reviewed, but not copy-edited or typeset. They are made available as submitted by the authors. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Histone H2A phosphorylation in DNA double‐strand break repair (2005)

DNA repair must take place within the context of chromatin, and it is therefore not surprising that many aspects of both chromatin components and proteins that modify chromatin have been implicated in this process. One of the best-characterized chromatin modification events in DNA-damage responses is the phosphorylation of the SQ motif found in histone H2A or the H2AX histone variant in higher eukaryotes. This modification is an early response to the induction of DNA damage, and occurs in a wide range of eukaryotic organisms, suggesting an important conserved function. One function that histone modifications can have is to provide a unique binding site for interacting factors. Here, we review the proteins and protein complexes that have been identified as H2AS129ph (budding yeast) or H2AXS139ph (human) binding partners and discuss the implications of these interactions.
A spitting image (1989)

Three cases of injection of human saliva are presented, all of which occurred among incarcerated men. Although no previous cases have been described, we believe that this entity is not uncommon in the prison population.
THE PRECICE INTRAMEDULLARY LIMB LENGTHENING SYSTEM – EARLY RESULTS (2013)

We present the results of a new non-invasive lengthening nail enabling accurate control of the lengthening process and joint rehabilitation. Introduction The use of intramedullary lengthening nails have gained popularity as they reduce common complications associated with external fixators, including infection, joint stiffness, bone regenerate deformity, late fracture and patient implant acceptance. Current nails however are associated with complications including implant breakage, mechanical failure, runaway nail and requiring MUA to restart or obtain segment lengthening. The Precice nail incorporates magnet technology with a hand held device allowing non-invasive lengthening. The nail is also reversible allowing shortening if required. Physiotherapy can continue throughout treatment to maintain joint range of motion without concern of uncontrolled nail runaway. The lengthening is axial reducing shear/torsional forces on the regenerate. Method The lengthening of 4 femora was undertaken in 3 patients, mean age 34 yrs for post-traumatic shortening and short stature. A standard technique included an Ilizarov corticotomy followed by a 6 day latent period. Patients were mobilised partial weight bearing and knee range of motion maintained. The femora were lengthened one third of a millimetre three times per day. Radiographic and clinical review was performed every 2 weeks. Results The desired femoral length was obtained in all patients, mean 5.6 cms (4.5–6.5). There were no complications of infection, poor bone regenerate or premature consolidation. One patient undergoing bilateral femoral lengthening underwent surgical release of a tight Tensor Fascia Lata following completion of lengthening due to hip flexion contracture. One patient required slowing of the lengthening rate due to knee flexion contracture. Physiotherapy corrected the deformity and the normal lengthening rate could be resumed. Conclusion The Precice nail is a new device that offers accurate control of the lengthening process and rehabilitation. This should reduce complications of poor regenerate formation and soft tissue contractures.
The organic functional group in copper-containing amine oxidases (1991)

Resonance Raman spectroscopy has been used to probe the structure of the organic cofactor in copper-containing amine oxidases from bovine plasma, porcine kidney, pea seedlings, and the bacterium Arthrobacter P1. The enzymes were first derivatized with phenylhydrazine or p-nitrophenylhydrazine; resonance Raman spectra were obtained on the intact derivatized enzymes and on a derivatized active-site peptide isolated from bovine plasma amine oxidase. Spectra of the intact amine oxidase phenylhydrazones are practically identical, consistent with the enzymes examined containing a similar cofactor. Only minor frequency shifts and some intensity variations are detected between the resonance Raman spectra of intact bovine plasma amine oxidase and the isolated peptide. These spectral perturbations are attributable to differences in the micro-environment between the intact, folded protein and the isolated small peptide in aqueous solution. This rules out the possibility that a new structure is formed during the isolation of the derivatized active-site peptide. Importantly, the resonance Raman spectra of the phenylhydrazine and p-nitrophenylhydrazine derivatives of the bovine plasma amine oxidase peptide are identical to the spectra of the corresponding derivatives of topa quinone (6-hydroxydopa quinone). Hence these data provide strong, independent support for the recent identification of topa as the organic functional group in bovine plasma amine oxidase (Janes, S. M., Mu, D., Wemmer, D., Smith, A. J., Kaur, S., Maltby, D., Burlingame, A. L., and Klinman, J.P. (1990) Science 248, 981-987).
Using Aspect-Orientation to Add Persistency to Applications. (2005)

Abstract: This paper presents a comfortable and customizable persistence framework that supports the access of relational databases from Java applications. In order to keep the effort for implementation low, we show how to benefit from aspect-orientation. The framework has advantages over existing mapping tools: Flexibility is higher as the functionality can be freely designed. We demonstrate flexibility by putting emphasis on flexible mapping strategies. 1
Yttrium and Titanium Bismuthates with Structures Related to β-Bi2O3 (1996)

Y and Ti atoms in Bi7.5Y0.5O12 and Bi7.68Ti0.32O12.16 replace Bi atoms in the structure of β-Bi2O3 with additional O atoms completing their coordination polyhedra. Anti-glass disorder is indicated by neutron diffraction and EXAFS.
Signal Sequence: Application of Chemical DNA Synthesis to Studies of Studies of Translocation of Expressed Proteins (1985)

Abstract In general there are three different ways in which eucaryotic genes can be expressed in E. coli.
Expression of intracisternal A-type particles is increased when a B-cell lymphoma differentiates into an immunoglobulin-secreting cell (1989)

The murine B-cell lymphoma CH12, like many other murine cells, expresses intracisternal A-type particles (IAPs). When CH12 cells are treated with lipopolysaccharide, the cells differentiate and secrete immunoglobulin M. The expression of IAP genes was also increased, in parallel with the increased expression of immunoglobulin genes. The amount of IAP mRNA increased within 48 h of lipopolysaccharide treatment and reached a level fivefold higher than that in unactivated CH12 cells. The two major IAP transcripts (7.2 and 5.4 kilobases) were induced to similar extents. The increased level of mRNA was reflected in higher levels of the major IAP structural protein p70, whose abundance increased 3.6-fold. The number of IAP particles per cell also increased upon activation of CH12, from 67 in nonsecreting CH12 to 290 in secreting cells. All of the IAPs were confined to the cisternae of the endoplasmic reticulum (ER), regardless of the differentiation state of the cell. Accompanying the induction of p70 was the induction of the related IAP polypeptide p102. A third viral polypeptide, p120, was also made in CH12; its abundance was almost unchanged. Localization of the IAP proteins on ultrathin frozen sections showed that most were assembled into particles in the ER. However, there were small pools of unassembled proteins both in the ER and on the plasma membrane. p70 and p120 could be detected, by iodination, on the surfaces of both secreting and nonsecreting CH12 cells. Unlike p70 and p120, p102 did not seem to be membrane associated. Taken together, these observations show that IAP expression is regulated developmentally in B lymphocytes. Also, these observations point to possible interactions between IAP genes and other cellular genes.
HIGH PERFORMANCE ACETYLCHOLINE BIO- SENSOR USING CHARGE TRANSFER TECHNIQUE (2008)

Acetylcholine (ACh) biosensor based on a charge-transfer technique (CTTAS) was depicted and demonstrated experimentally. The CTTAS used a charge accumulation technique for Choline and H + ions perception system. With the proposed CTTAS, it was possible to amplify the sensing signals without external amplifier using the accumulation cycles. Due to its high resolution, fast response, small size, and low cost, the ACh biosensor has tremendous potential for applications in medical researches as well as clinical diagnosis.
Political Corruption in America. By George C. S. Benson, with Steven A. Maaranen and Alan Heslop. (Lexington, Mass.: Lexington Books, D.C. Heath, 1978. Pp. xviii + 339. $21.95.) (1979)

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Range optimization of a fin stabilized projectile (1997)

This paper investigates the use of controllable canards mounted on a fin stabilized field artillery projectile with the purpose of extending range. The flight control system pitch command is used as the independent control variable. Canard deflection angles are determined by passing interpolated pitch commands through a mixer. Using a non linear simplex method, optimized pitch command functions are determined so that projectile range is maximized. Results are shown for a 155mm projectile currently under developmental testing.
Dyslexia and development : neurobiological aspects of extra-ordinary brains (1993)

Dyslexia and Development presents recent findings of neurobiological research, which suggests a link between seemingly minor brain abnormalities and epilepsy, learning disorders and autism. The authors focus on the plasticity of the developing nervous system and the possible role of subtle early brain injury in the emergence of these disorders, particularly dyslexia. The contributors to this volume examine epidemiologic and clinical issues that may make the developing brain more vulnerable to environmental and genetic influences, which can in turn lead to abnormal brain plasticity and behaviour. Although major forms of brain malformation have been clearly associated with functional deficits, mild forms have historically been ignored or trivialized; this book supports the hypothesis that several types of such malformation reflect brain injury during critical stages of development, and also the premise that more and more disturbances of thought and behaviour stem from abnormalities of brain organization. Neurologists and neurobiologists, psychologists, psycholinguists, psychiatrists, and special educators will find here a guide to more enlightened understanding and more effective treatment of dyslexia. In fact, the book emphasizes the positive aspect of the neurobiological deviation that dyslexic brains seem to show, along with the observation that people with such brains are often quite creative and extra-ordinary, rather than handicapped. In turn, the revised consideration of dyslexia should lead to more serious attention to other disturbances of childhood behaviour as problems in developmental neurology, as well as to a deeper analysis of possible neurological bases for individual differences in normal behaviour and personality.
A Charge-Transfer Complex of Xenon and Difluorovinylidene (1998)

ADVERTISEMENT RETURN TO ISSUEPREVCommunicationNEXTA Charge-Transfer Complex of Xenon and DifluorovinylideneCarsten Kötting, Wolfram Sander, Jürgen Breidung, Walter Thiel, Michael Senzlober, and Hans BürgerView Author Information Lehrstuhl für Organische Chemie II der Ruhr-Universität D-44780 Bochum, Germany Organisch-Chemisches Institut der Universität CH-8057 Zürich, Switzerland Anorganische Chemie, FB9, Universität-GH D-42097 Wuppertal, Germany Cite this: J. Am. Chem. Soc. 1998, 120, 1, 219–220Publication Date (Web):January 14, 1998Publication History Received29 September 1997Published online14 January 1998Published inissue 1 January 1998https://pubs.acs.org/doi/10.1021/ja973387nhttps://doi.org/10.1021/ja973387nrapid-communicationACS PublicationsCopyright © 1998 American Chemical SocietyRequest reuse permissionsArticle Views269Altmetric-Citations30LEARN 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:Binding energy,Irradiation,Light absorption,Molecules,Vinylidene group Get e-Alerts
Electrical transport properties of individual WS2 nanotubes and their dependence on water and oxygen absorption (2012)

The electrical properties of WS2 nanotubes (NTs) were studied through measuring 59 devices. Important electrical parameters, such as the carrier concentration, mobility, and effective barrier height at the contacts, were obtained through fitting experimental non-linear I-V curves using a metal-semiconductor-metal model. The carrier mobility was found to be several orders of magnitude higher than that have been reported previously for WS2 NTs. Water absorption was found to decrease the conductivity and carrier mobility of the NTs, and could be removed when the sample was dried. Oxygen absorption also slightly decreased the conductivity of WS2 NTs.
Synthese und Bindungsverhalten eines künstlichen Rezeptors für biogene Amine /Synthesis and Complexing Features of an Artificial Receptor for Biogenic Amines (1987)

The synthesis of a ditopic linear receptor 3 consisting of an azacrown ether moiety for binding prim. ammonium functions and a macrotricyclic tetrahedral moiety for binding hydrophobic guest species is described. The covalent interconnection of these subunits was supposed to constitute a receptor with enhanced specificity towards dopamine-type biogenic amines. Host-guest complexation was studied in a competition method with potassium ion using ion selective electrodes. The binding features of 3 with a series of biogenic amines reveal that neither the absolute binding strength nor the selectivity is enhanced in relation to the monotopic receptor 4. It is concluded that 3 does not simultaneously utilize both receptor subunits in binding the biogenic amine substrates.