gebhart/patrepeval huggingface dataset:
Deletion of Tet proteins results in quantitative disparities during ESC differentiation partially attributable to alterations in gene expression (2019)

We conclude that loss of Tet2 has the most dramatic effect both on the phenotype of ESCs and the transcriptome compared to other genotypes. While loss of Tet proteins increased DNA hypermethylation, especially in gene promoters, these changes in DNA methylation did not correlate with gene expression changes. Thus, while loss of different Tet proteins alters DNA methylation, this change does not appear to be directly responsible for transcriptome changes. Thus, loss of Tet proteins likely regulates the transcriptome epigenetically both through altering 5mC but also through additional mechanisms. Nonetheless, the transcriptome changes in pluripotent Tet2<sup>-/-</sup> ESCs compared to wild-type implies that the disparities in differentiation can be partially attributed to baseline alterations in gene expression.
Enhanced Light Scattering from Hollow Polycrystalline TiO2 Particles in a Cellulose Matrix (2008)

Hollow and core-shell rutile particles were synthesized, and their opacifying power in a cellulose matrix was compared with that of commercial solid rutile particles. It was found that the opacifying power of hollow polycrystalline rutile particles was superior to that of a commercial rutile pigment in a highly pressed bleached fiber matrix, depending on cavity size, whereas the opacifying power of silica-rutile titania core-shell particles was found comparable to that of commercial rutile at constant titania loading. The light scattering efficiency of titania core-shell particles was also shown to be dependent on the light scattering efficiency of the core material. The light scattering efficiency of the polycrystalline silica cores was found to depend on calcination temperature and crystal structure.
Type-based Semantic Optimization for Scalable RDF Graph Pattern Matching (2017)

Scalable query processing relies on early and aggressive determination and pruning of query-irrelevant data. Besides the traditional space-pruning techniques such as indexing, type-based optimizations that exploit integrity constraints defined on the types can be used to rewrite queries into more efficient ones. However, such optimizations are only applicable in strongly-typed data and query models which make it a challenge for semi-structured models such as RDF. Consequently, developing techniques for enabling typebased query optimizations will contribute new insight to improving the scalability of RDF processing systems.
Roles of Skeletal Muscle-Specific Calpain, p94/calpain 3, on Multiple Molecular Interactions Using Connectin/titin N2A Region as a Modulating Scaffold (2008)

1 Calpain Project, Rinshoken, Tokyo, Japan 2 Department of Applied Biological Science, Faculty of Science and Technology, Tokyo University of Science, Chiba, Japan 3 CREST, JST, Saitama, Japan 4 Biomedical Research Center, Graduate School of Medicine, Juntendo University, Tokyo, Japan 5 Institute fur Anasthesiologie und Operative Intensivmedizin, Universitatsklinikum Mannheim, Mannheim, Germany 6 Institute for Environmental and Gender Specific Medicine, Graduate School of Med, Juntendo University, Chiba, Japan
Two proteins encoded at the chlA locus constitute the converting factor of Escherichia coli chlA1 (1989)

Molybdopterin (MPT) is not produced by the Escherichia coli mutants chlA1, chlM, or chlN or by the Neurospora crassa mutant nit-1. Extracts of E. coli chlA1 contain an activity, the converting factor, which is functionally defined by its ability to convert a low-molecular-weight precursor present in crude extracts of N. crassa nit-1 into molybdopterin in vitro. In this study, it has been shown that the converting factor consists of two associative proteins (10 and 25 kilodaltons [kDa]) which can be separated by using either anion-exchange or gel filtration chromatography. Neither protein is able to complement extracts of nit-1 by itself. Analysis of chlA Mu insertion mutants has shown that the two proteins are distinct gene products encoded at the chlA locus. Twelve chlA Mu insertion strains which lacked converting factor activity were deficient in one or both of the proteins. Converting factor activity could be generated by mixing extracts from strains having the 25-kDa protein with those having the 10-kDa protein but not those lacking both proteins. Finally, it was shown that the chlM mutant lacks the 10-kDa protein while the chlN mutant, which contains both the 10- and 25-kDa proteins, lacks a function required to activate the 10-kDa protein.
Anti-D immunoglobulin. (1969)

Utidjian are quite right (8 March, p. 641). Conization (also our routine apart from pregnancy) is a more complete method of investigating a posi- tive smear than our cervical inspection and four-quadrant small biopsies. Over the period from 1958 to 1967 we have asked our patients in the interest of the baby to accept our advice, with the tiny risk that ill fortune had dealt what A. T. Hertig calls the "joker in the pack"-,that is, not only carcinoma-in-situ but 'a tiny area of invasive, perhaps metastatic, carcinoma. Since 1966 we have added to our investigatory team J. A. Jordan, an expert in modern colposcopy, which uses subepithelial vascular patterns to locate abnormal epithelium.24 Small biopsies may be taken from target areas, but for the most part the dilatable pregnant cervix reflects the positive smear-namely, carci- noma-in-situ or epithelial dysplasia: these areas 'are now left alone until after delivery and planned conization eight weeks later.
A total synthesis of d,l-luciduline by a regioselective intramolecular addition of an N-alkenylnitrone (1976)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTA total synthesis of d,l-luciduline by a regioselective intramolecular addition of an N-alkenylnitroneWolfgang Oppolzer and Martin PetrzilkaCite this: J. Am. Chem. Soc. 1976, 98, 21, 6722–6723Publication Date (Print):October 1, 1976Publication History Published online1 May 2002Published inissue 1 October 1976https://pubs.acs.org/doi/10.1021/ja00437a062https://doi.org/10.1021/ja00437a062research-articleACS PublicationsRequest reuse permissionsArticle Views1418Altmetric-Citations49LEARN 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
Indomethacin therapy in the treatment of symptomatic polyhydramnios. (1990)

Eight gravidas with symptomatic polyhydramnios were managed with maternal indomethacin therapy. The mean gestational age at presentation was 28.6 +/- 3.5 weeks. Only patients requiring serial amniotic fluid decompressions for rapid amniotic fluid reaccumulation were enrolled in the study. An initial amniotic fluid decompression was performed and, when a second decompression was required, indomethacin was initiated. Amniotic fluid volume was measured with a para-amino hippuric acid dilution technique before and during indomethacin therapy. Fetal urine output, studied by serial bladder dimension ultrasonography, declined significantly during indomethacin therapy (P less than .05). Only one patient required further amniotic fluid decompression while on indomethacin. The mean (+/- SD) amniotic fluid volume was 1529 +/- 1070 mL after the initial amniocentesis, and was 2355 +/- 820 mL at the second amniocentesis just before indomethacin therapy. The mean amniotic fluid volume during indomethacin therapy was 1608 +/- 914 mL. We recommend initial amniotic fluid decompression followed by indomethacin therapy for the management of symptomatic polyhydramnios as an alternative to serial amniotic fluid decompressions.
The parallel β helix and other coiled folds (1995)

A new type of structural domain, composed of all parallel beta strands, has been observed within the last year. An analysis of the basic types suggests that there are two distinct classes: the parallel beta helices, which belong to a tri beta-strand category, and the beta roll, which belongs to a di beta-strand category. The novel structural features of each class are described and the proteins belonging to each category are summarized. Proteins with the parallel beta helix fold include three pectate lyases and the tailspike protein from P22 phage. Proteins with the beta roll fold include two alkaline proteases. Although the parallel beta composition is emphasized, the same set of proteins share another common structural feature with several other proteins containing alpha helices: the polypeptide backbone is folded into a coiled structure in which each coil has the same 3-dimensional arrangement of a group of secondary structural elements. In addition to parallel beta domains, the other groups include the alpha/beta coiled fold, as represented by ribonuclease inhibitor, and the alpha/alpha coiled fold, as represented by lipovitellin and soluble lytic transglycoslyase. Novel features of the alpha/beta and alpha/alpha coiled folds are summarized.
Motor cortex stimulation and neuropathic facial pain (2006)

Trigeminal neuropathic pain is a syndrome of severe, constant facial pain related to disease of or injury to the trigeminal nerve or ganglion. Causes of this type of pain can include injury from sinus or dental surgery, skull and/or facial trauma, or intentional destruction for therapeutic reasons (deafferentation) as well as intrinsic pathological conditions in any part of the trigeminal system. Motor cortex stimulation (MCS) is a relatively new technique that has shown some promise in the treatment of trigeminal neuropathic pain. This technique has the potential to revolutionize the treatment of chronic pain. The authors present a review of the literature, focusing on surgical technique, device programming, safety, and efficacy, and suggest some initial guidelines for standardization of these aspects. It is important to evaluate MCS critically in a prospective, controlled fashion.
Polar-Coded Modulation (2013)

A framework is proposed that allows for a joint description and optimization of both binary polar coding and 2 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">m</sup> -ary digital pulse-amplitude modulation (PAM) schemes. For the latter, the multilevel coding (MLC) approach as well as bit-interleaved coded modulation (BICM) are considered. The conceptual equivalence of polar coding and multilevel coding is covered in detail. Based on an alternative characterization of the channel polarization phenomenon, rules for the optimum choice of the labeling in coded modulation schemes employing polar codes are developed. Simulation results regarding the error performance of the proposed schemes on the AWGN channel are included.
Homologous sugar-transport proteins in microbes and man (1993)

Conference Article| November 01 1993 Homologous sugar-transport proteins in microbes and man Peter J. F. Henderson; Peter J. F. Henderson *Department of Biochemistry and Molecular Biology, University of Leeds, Leeds LS2 9JT, U.K. Search for other works by this author on: This Site PubMed Google Scholar Paul E. Roberts; Paul E. Roberts †Institute of Cell, Animal and Population Biology, University of Edinburgh, Edinburgh EH9 3JT, U.K. Search for other works by this author on: This Site PubMed Google Scholar Giles E. M. Martin; Giles E. M. Martin *Department of Biochemistry and Molecular Biology, University of Leeds, Leeds LS2 9JT, U.K. Search for other works by this author on: This Site PubMed Google Scholar Kenneth B. Seamon; Kenneth B. Seamon ‡Department of Health and Human Services, Food and Drug Administration, NIH, Bethesda, MD 20892, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar Adrian R. Walmsley; Adrian R. Walmsley §Department of Molecular Biology and Biotechnology, University of Sheffield, Sheffield S10 2UH, U.K. Search for other works by this author on: This Site PubMed Google Scholar Nicholas G. Rutherford; Nicholas G. Rutherford *Department of Biochemistry and Molecular Biology, University of Leeds, Leeds LS2 9JT, U.K. Search for other works by this author on: This Site PubMed Google Scholar Manuel F. Varela; Manuel F. Varela ¶Departments of Cell Biology and Microbiology, UNM Cancer Center, University of New Mexico School of Medicine, Albuquerque, NM 87131, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar Jeffrey K. Griffith Jeffrey K. Griffith ¶Departments of Cell Biology and Microbiology, UNM Cancer Center, University of New Mexico School of Medicine, Albuquerque, NM 87131, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1993) 21 (4): 1002–1006. https://doi.org/10.1042/bst0211002 Article history Received: August 02 1993 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn MailTo Cite Icon Cite Get Permissions Citation Peter J. F. Henderson, Paul E. Roberts, Giles E. M. Martin, Kenneth B. Seamon, Adrian R. Walmsley, Nicholas G. Rutherford, Manuel F. Varela, Jeffrey K. Griffith; Homologous sugar-transport proteins in microbes and man. Biochem Soc Trans 1 November 1993; 21 (4): 1002–1006. doi: https://doi.org/10.1042/bst0211002 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Society Transactions Search Advanced Search Keywords: DDT, duodecimal transporter This content is only available as a PDF. © 1993 Biochemical Society1993 Article PDF first page preview Close Modal You do not currently have access to this content.
Silicon-organic hybrid (SOH) integration and photonic multi-chip systems: Technologies for high-speed optical interconnects (2016)

Limitations of silicon photonics can be overcome by hybrid integration of silicon photonic or plasmonic circuits with organic materials or by photonic multi-chip systems. We give an overview on our recent progress regarding both silicon-organic hybrid (SOH) integration and multi-chip integration enabled by photonic wire bonding.
Advanced 3R regenerator scheme for high spectral efficient signal waveforms (2015)

We propose a novel 3R regenerator architecture for highly spectral efficient signals. Through numerical simulations we evaluate its performance and compare with traditional 2R schemes. The results of the analysis demonstrate necessity of 3R for regeneration of NRZ pulses and its relevance for future high capacity transmission systems.
Design of a new quality assessment system for textile products (2009)

This paper presents a new methodology for quality assessment of textile products. A number of quality value functions are investigated. A new hierarchical method is developed to enable a systematic assessment of the quality of a product by mimicking information provided in its attributes, that is, the results of laboratory experiments. The theoretical aspects of the method are discussed and experiments are conducted to validate the method using real data.
Interim analysis of a phase I/IIa trial assessing E39+GM-CSF, a folate binding protein vaccine, to prevent recurrence in ovarian and endometrial cancer patients (2016)

This phase I/IIa trial reveals that E39+GM-CSF is well-tolerated and elicits a strong, dose-dependent in vivo immune response. Early efficacy results are promising in the 1000 mcg dose cohort. This study proves the safety and establishes the dose of E39 for a larger prospective, randomized, controlled trial in HLA-A2+ EC and OC patients to prevent recurrence.
Supplementary Figure 1 from Impact of the Integrin Signaling Adaptor Protein NEDD9 on Prognosis and Metastatic Behavior of Human Lung Cancer (2023)

&lt;p&gt;PDF file - 85K, Evaluation and selection of siRNA for NEDD9&lt;/p&gt;
Serum levels of granulocyte colony-stimulating factor (G-CSF) and macrophage colony-stimulating factor (M-CSF) in pancreatic cancer patients (2007)

Our findings suggest the usefulness of M-CSF as a tumor marker for pancreatic cancer, especially in combination with CA 19-9.
Coordination of Uranyl to the Redox-Active Calix[4]pyrrole Ligand (2020)

Reaction of [Li(THF)]<sub>4</sub>[L] (L = Me<sub>8</sub>-calix[4]pyrrole]) with 0.5 equiv of [U<sup>VI</sup>O<sub>2</sub>Cl<sub>2</sub>(THF)<sub>2</sub>]<sub>2</sub> results in formation of the oxidized calix[4]pyrrole product, [Li(THF)]<sub>2</sub>[L<sup>Δ</sup>] (<b>1</b>), concomitant with formation of reduced uranium oxide byproducts. Complex <b>1</b> can also be generated by reaction of [Li(THF)]<sub>4</sub>[L] with 1 equiv of I<sub>2</sub>. We hypothesize that formation of <b>1</b> proceeds via formation of a highly oxidizing <i>cis</i>-uranyl intermediate, [Li]<sub>2</sub>[<i>cis</i>-U<sup>VI</sup>O<sub>2</sub>(calix[4]pyrrole)]. To test this hypothesis, we explored the reaction of <b>1</b> with either 0.5 equiv of [U<sup>VI</sup>O<sub>2</sub>Cl<sub>2</sub>(THF)<sub>2</sub>]<sub>2</sub> or 1 equiv of [U<sup>VI</sup>O<sub>2</sub>(OTf)<sub>2</sub>(THF)<sub>3</sub>], which affords the isostructural uranyl complexes, [Li(THF)][U<sup>VI</sup>O<sub>2</sub>(L<sup>Δ</sup>)Cl(THF)] (<b>2</b>) and [Li(THF)][U<sup>VI</sup>O<sub>2</sub>(L<sup>Δ</sup>)(OTf)(THF)] (<b>3</b>), respectively. In the solid state, <b>2</b> and <b>3</b> feature unprecedented uranyl-η<sup>5</sup>-pyrrole interactions, making them rare examples of uranyl organometallic complexes. In addition, <b>2</b> and <b>3</b> exhibit some of the smallest O-U-O angles reported to date (<b>2</b>: 162.0(7) and 162.7(7)°; <b>3</b>: 164.5(5)°). Importantly, the O-U-O bending observed in these complexes suggests that the oxidation of [Li(THF)]<sub>4</sub>[L] does indeed occur via an unobserved <i>cis</i>-uranyl intermediate.
A rapidly dividing human medulloblastoma cell line (D283 MED) expresses all three neurofilament subunits. (1987)

The majority of cells in a rapidly dividing human medulloblastoma cell line (D283 MED) are shown to express the two high-molecular-weight human neurofilament (NF) subunits, whereas a minority express the low-molecular-weight NF subunit. These three polypeptides are integral subunits of the intermediate filaments (IFs) found in normal neurons. Other cell type-specific IF proteins (keratin, desmin, and glial filament polypeptides) are not present in D283 MED cells. Further, the immunocytochemical, immunochemical and ultrastructural data suggest that the neurofilaments in these cells are abnormal, possibly because of a paucity of the low-molecular-weight NF subunit. This is the first human cell line derived from a central nervous system tumor that is capable of expressing all three NF triplet proteins. It is a unique model system for studies of normal and abnormal human NF metabolism as well as for probing the cell biology of medulloblastomas.
Experimental Cold Flow Water Model of a Blast Furnace Hearth: Part I (2004)

An experimental investigation of the cold flow water model of the blast furnace hearth has been performed to examine the influence of dead man porosity and taphole height on the flow patterns in the hearth. The model is 1/10th-scale of Ispat blast furnace No. 7. This model satisfied both the geometrical and Froude number similarities of the prototype. Experimental simulations were performed for dead man structure with porosity of zero and 0.3, and for various taphole heights. Results show that there is a considerable influence of the porosity of the dead man structure and the taphole height on the flow contours within the coke free zone of the hearth. Furthermore, experimental evidence shows that the maximum fluid velocity occurred in the vicinity of the taphole, which is possibly the region of high refractory wear in the prototype. This information is useful to design engineers in the redesign and reline of a blast furnace to reduce refractory erosion and increase campaign life. A comparison between experimentally and CFD predicted flow patterns shows good agreement qualitatively without agreeing quantitatively. In the absence of measured flow data for blast furnace hearth, an experimental model is needed to validate either numerically or analytically predicted flow patterns.
Characterization of pathology-inducing α-synuclein species from human diseased brain tissue (2019)

Abstract Synucleinopathies are a group of neurodegenerative diseases characterized by the presence of pathological accumulations of misfolded, phosphorylated α-synuclein (αSyn) protein. Multiple lines of evidence indicate that synucleinopathy disease progression is driven by a prion-like process of transmission of a pathologic form of αSyn. One potential therapeutic approach to prevent cell-to-cell propagation is to target this transmissible species with selective antibodies. In this study, a rodent primary neuronal culture reporter system was developed to monitor induction of detergent-insoluble, phosphorylated (pS129) aggregates of αSyn. Induction of pS129 αSyn pathology was observed with both synthetic αSyn fibrils (PFFs) and brain lysates from multiple system atrophy (MSA) patients but not αSyn monomers or human brain lysate controls. The induction-competent species in MSA lysates could be enriched by high-speed centrifugation suggesting that it is present as a high molecular weight aggregate. Furthermore, samples derived from brain lysates from Parkinson’s disease (PD) and Dementia with Lewy Bodies (DLB) patients also induced pS129 αSyn pathology, but required longer incubation times. Lastly, the potential of αSyn selective antibodies to immunodeplete induction-competent forms of αSyn from both PFF and synucleinopathy brain samples is described. The results demonstrate that antibodies targeting the C-terminal of αSyn are most effective for immunodepletion of pathology-inducing forms of αSyn from samples derived from human synucleinopathy brains. Furthermore, the data support the hypothesis that antibodies that recognize a C-terminal epitope and exhibit selectivity for oligomeric forms over monomeric forms of αSyn represent a desirable target for immunotherapy for synucleinopathy patients.
Introducing application design and software engineering principles in introductory CS courses: model-view-controller Java application framework (2004)

This paper presents an approach for introducing application design and software engineering principles early in the CS curriculum. When courses are taught in a language such as Java, programming labs may involve writing a complete application or applet. In these cases it is possible to introduce notions of software engineering principles alongside a topic such as object-oriented design. This paper presents a simple application framework in Java that follows a Model-View-Controller design and that can be used in introductory and core courses to introduce elements of software engineering. Although it is focused on applications having a graphical interface, it may be modified to support command-line programs. The application framework is presented in the context of development tools Apache Ant and JUnit.