gebhart/patrepeval huggingface dataset:
Regulation of capsular polysaccharide synthesis in Escherichia coli K12 (1991)

Synthesis of the capsular polysaccharide colanic acid in Escherichia coli K12 is regulated by a complex network of regulatory proteins. This regulation is expressed at the level of transcription of the cps (capsular polysaccharide synthesis) genes. Two positive regulators, RcsA and RcsB, are necessary for maximal capsule expression. The availability of RcsA is normally limited because the RcsA protein is rapidly degraded by the Lon ATP-dependent protease. Therefore Lon acts, indirectly, as a negative regulator of capsule synthesis. The sequence predicted for RcsB suggests that it is the effector component of a two-component system; a protein with homology to sensors, RcsC, also plays a role in capsule regulation. We propose a model for capsule synthesis in which RcsA interacts with RcsB to stimulate transcription of the cps genes. The mechanism of regulation of colanic acid synthesis in E. coli may apply to other capsules in a variety of Gram-negative bacteria.
A translational silencing function of MCPIP1/Regnase-1 specified by the target site context (2018)

The expression of proteins during inflammatory and immune reactions is coordinated by post-transcriptional mechanisms. A particularly strong suppression of protein expression is exerted by a conserved translational silencing element (TSE) identified in the 3' UTR of NFKBIZ mRNA, which is among the targets of the RNA-binding proteins Roquin-1/2 and MCPIP1/Regnase-1. We present evidence that in the context of the TSE MCPIP1, so far known for its endonuclease activity toward mRNAs specified by distinct stem-loop (SL) structures, also suppresses translation. Overexpression of MCPIP1 silenced translation in a TSE-dependent manner and reduced ribosome occupancy of the mRNA. Correspondingly, MCPIP1 depletion alleviated silencing and increased polysomal association of the mRNA. Translationally silenced NFKBIZ or reporter mRNAs were mostly capped, polyadenylated and ribosome associated. Furthermore, MCPIP1 silenced also cap-independent, CrPV-IRES-dependent translation. This suggests that MCPIP1 suppresses a post-initiation step. The TSE is predicted to form five SL structures. SL4 and 5 resemble target structures reported for MCPIP1 and together were sufficient for MCPIP1 binding and mRNA destabilization. Translational silencing, however, required SL1-3 in addition. Thus the NFKBIZ TSE functions as an RNA element in which sequences adjacent to the site of interaction with MCPIP1 and dispensable for accelerated mRNA degradation extend the functional repertoire of MCPIP1 to translational silencing.
Studies on the procedure for the construction of cellular protein databases employing micro two‐dimensional electrophoresis: An HL‐60 protein database (1995)

The procedure to construct a cellular protein database employing a micro two-dimensional electrophoresis (2-DE) technique was studied. Protein information on human cultured leukemic cell HL-60 was collected as an HL-60 protein database, which consists of a 2-DE polypeptide map of 670 recognized spots with spot numbering and information on isoelectric point (pI), molecular mass, and percent integrated density. The procedure employed in this report will be applicable for the comparative studies of cellular proteins and will help to construct comprehensive cellular protein databases.
Developing coherent multiagent systems using JAFMAS (2002)

The Java-based Agent Framework for Multi-Agent Systems (JAFMAS) provides a generic methodology for developing speech-act based multiagent systems (MAS) along with a set of classes to support implementing these agents in Java. The methodology follows five stages: (i) agent identification, (ii) definition of each agent's conversations, (iii) determining the rules governing each agent's conversations, (iv) analyzing the coherency between all the conversations in the system, and (v) implementation. JAFMAS provides communication, linguistic and coordination support through sixteen Java classes. Communication support is provided for both directed and subject-based broadcast communication. Linguistic support is provided for speech-act (e.g. KQML) based communication languages. Coordination support comes from conceptualizing agent plans and their coordination as rule-based conversations represented by automata models.
Circulating Fibroblast Growth Factor-23 Is Associated With Fat Mass and Dyslipidemia in Two Independent Cohorts of Elderly Individuals (2010)

We report for the first time on associations between circulating FGF23, fat mass, and adverse lipid metabolism resembling the metabolic syndrome, potentially representing a novel pathway(s) linking high FGF23 to an increased cardiovascular risk.
Test and evaluation of data association algorithms in hard+soft data fusion (2014)

The information gathered by sources during counter insurgency (COIN) operations can be classified into two types. The data gathered by humans and recorded in the textual format such as field reports is referred to as soft data. Data gathered with the help of physical sensors such as video cameras, LIDAR, acoustic sensors, etc. is referred to as hard data. To process this information, various hard and soft processing techniques are used, which convert these data into relational graphs. Many times this hard and soft data contains duplicate references of the same entities, events and relationships, caused by multiple sources reporting on the same entity, event or relationship or due to successive reports on an entity, event or relationship. The role of data association is to identify these duplicate references across the different observations and merge them into fused (cumulative) evidence. This cumulative evidence will contain more information about the real world than offered by any single observation. We want the cumulative evidence to describe the real world as accurately as possible, so as to draw satisfactory conclusions on the state of the real world. This calls for development of an objective strategy for evaluating the performance of data association processes. In this paper, we describe in detail the testing and evaluation strategy developed for this task. This strategy was deployed for the evaluation of three different data association algorithms on the Sunni Criminal (SUN) Thread of the Synthetic Counterinsurgency (SYNCOIN) dataset. The SUN thread consists of 114 soft messages and 13 hard messages. This test and evaluation strategy can also help in selecting the best data association algorithm to deploy based on the different properties of the input dataset and processing time permissible.
Retinoid signaling is essential for patterning the endoderm of the third and fourth pharyngeal arches (2000)

The requirement of retinoic acid (RA) in the initial formation of the pharyngeal arches was investigated by treating headfold-stage mouse embryos with a pan-RAR antagonist in vitro and in vivo. This results in a complete absence of mesenchyme, arteries, nerves and epibranchial placodes of the 3rd and 4th pharyngeal arches, complete agenesis of the 3rd and 4th pouches and consistent lack of the 6th arch artery. Mesodermally derived endothelial cells are absent from the 3rd and 4th pharyngeal arch region and the distribution domain of EphA2 transcripts in mesodermal cells is shifted caudally. In situ hybridization with CRABPI, kreisler and EphA4 probes and the pattern of expression of a Wnt1-lacZ transgene show that neural crest cells (NCC) normally destined to the 3rd and 4th arches migrate ectopically. Most interestingly, the appearance of the 3rd and 4th arches is prevented by the antagonist only during a very narrow window of time, which does not correspond to the period of post-otic NCC migration. Both the timing of appearance and the nature of the defects in RAR antagonist-treated embryos indicate that migrating NCC and mesodermal cells destined to the caudal pharyngeal arches do not represent primary targets of RA action. Alterations in the endodermal expression pattern of Hoxa1, Hoxb1, Pax1, Pax9, Fgf3 and Fgf8 in response to the antagonist-induced block in RA signal transduction demonstrate for the first time that RA signaling is indispensable for the specification of the pharyngeal endoderm and suggest that this signaling is necessary to provide a permissive environment locally for the migration of NCC and mesodermal cells. Our study also indicates that the formation of the 2nd pharyngeal arch and that of the 3rd and 4th pharyngeal arches probably involve distinct RA-dependent developmental processes.
Generation of resting membrane potential (2004)

This brief review is intended to serve as a refresher on the ideas associated with teaching students the physiological basis of the resting membrane potential. The presentation is targeted toward first-year medical students, first-year graduate students, or senior undergraduates. The emphasis is on general concepts associated with generation of the electrical potential difference that exists across the plasma membrane of every animal cell. The intention is to provide students a general view of the quantitative relationship that exists between 1) transmembrane gradients for K(+) and Na(+) and 2) the relative channel-mediated permeability of the membrane to these ions.
Discovery of Potent, Selective, Orally Active, Nonpeptide Inhibitors of Human Mast Cell Chymase (2007)

A series of beta-carboxamido-phosphon(in)ic acids (2) was identified as a new structural motif for obtaining potent inhibitors of human mast cell chymase. For example, 1-naphthyl derivative 5f had an IC50 value of 29 nM and (E)-styryl derivative 6g had an IC50 value of 3.5 nM. An X-ray structure for 5f.chymase revealed key interactions within the enzyme active site. Compound 5f was selective for inhibiting chymase versus eight serine proteases. Compound 6h was orally bioavailable in rats (F=39%), and orally efficacious in a hamster model of inflammation.
Liposomes as Gene Carriers: Efficient Transformation of Mouse L Cells by Thymidine Kinase Gene (1982)

Stable transformation of mouse L cells deficient in thymidine kinase was achieved by liposome-mediated transfer of a recombinant plasmid carrying the thymidine kinase gene. Ten percent of the recipient cells expressed thymidine kinase activity. The transformed phenotype (for example, 200 out of 10(6) cells) was stable under selective and nonselective conditions. The liposome technique is compared with other methods currently used for gene transfer.
Application of functionalized polymers in organic synthesis (1981)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTApplication of functionalized polymers in organic synthesisAhmed Akelah and David C. SherringtonCite this: Chem. Rev. 1981, 81, 6, 557–587Publication Date (Print):December 1, 1981Publication History Published online1 May 2002Published inissue 1 December 1981https://pubs.acs.org/doi/10.1021/cr00046a003https://doi.org/10.1021/cr00046a003research-articleACS PublicationsRequest reuse permissionsArticle Views2076Altmetric-Citations407LEARN 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
High Frequency Generalized Transduction by MiniMu Plasmid Phage (1987)

Deletion derivatives of phage Mu which replicate as multicopy plasmids, and also transpose and package like Mu, have been developed for the in vivo cloning of bacterial genes. We show here that these miniMu plasmid phage are also efficient at generalized transduction and that both in vivo cloning and generalized transduction of a given gene can be accomplished in a single experiment.
Reactivity of palladium(II) complexes with bidentate bis(phosphine) ligands toward the octahydrotriborate(1-) anion and dependence of the reaction upon halide arrangement: molecular structure of the trans-(bis(diphenylphosphino)hexane)palladium(II) dichloride dimer (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTReactivity of palladium(II) complexes with bidentate bis(phosphine) ligands toward the octahydrotriborate(1-) anion and dependence of the reaction upon halide arrangement: molecular structure of the trans-(bis(diphenylphosphino)hexane)palladium(II) dichloride dimerCatherine E. Housecroft, Bilal A. M. Shaykh, Arnold L. Rheingold, and Brian S. HaggertyCite this: Inorg. Chem. 1991, 30, 1, 125–130Publication Date (Print):January 1, 1991Publication History Published online1 May 2002Published inissue 1 January 1991https://pubs.acs.org/doi/10.1021/ic00001a024https://doi.org/10.1021/ic00001a024research-articleACS PublicationsRequest reuse permissionsArticle Views367Altmetric-Citations28LEARN 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-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
ChemInform Abstract: Ethyl α‐Amino‐β,β‐diethoxypropionate, a Useful Synthon for the Preparation of 3,4‐Fused Pyridine‐6‐carboxylates from Aromatic Aldehydes. (1997)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Topical aldose reductase inhibitor for correcting corneal endothelial changes in diabetic patients. (1995)

These observations suggest that aldose reductase may be involved in the aetiology of corneal endothelial variations in diabetic patients.
New Trends of Digital Data Storage in DNA (2016)

With the exponential growth in the capacity of information generated and the emerging need for data to be stored for prolonged period of time, there emerges a need for a storage medium with high capacity, high storage density, and possibility to withstand extreme environmental conditions. DNA emerges as the prospective medium for data storage with its striking features. Diverse encoding models for reading and writing data onto DNA, codes for encrypting data which addresses issues of error generation, and approaches for developing codons and storage styles have been developed over the recent past. DNA has been identified as a potential medium for secret writing, which achieves the way towards DNA cryptography and stenography. DNA utilized as an organic memory device along with big data storage and analytics in DNA has paved the way towards DNA computing for solving computational problems. This paper critically analyzes the various methods used for encoding and encrypting data onto DNA while identifying the advantages and capability of every scheme to overcome the drawbacks identified priorly. Cryptography and stenography techniques have been analyzed in a critical approach while identifying the limitations of each method. This paper also identifies the advantages and limitations of DNA as a memory device and memory applications.
Effects of Cisplatin and its Analogues on the Permeabilityof Human Erythrocyte Membrane (1994)

The biomembrane is postulated as the initial target when Platinum(II) complexes attack cells. In this work, a spin-labeling ESR technique has been used to study the effects of cis-DCDP, cis-DBDP, cis-DIDP, trans-DCDP, and cis-DADP on the permeability of human erythrocyte membrane. We monitored the reduction processes of the ESR signal of a nitroxide spin label, (TEMPO), which leaks out through the membrane and is reduced by the external ascorbate. Our results indicate that cisplatin and its analogues can enhance the permeability of membranes to small moieties such as TEMPO and ascorbate, and the differences between these compounds are related to features of the leaving group. In addition, changes in the order parameter of 5DS spin label in membrane indicate that hydrolysis of these Pt(II) complexes result in membrane damage.
Survivin expression and its clinical significance in pancreatic cancer (2005)

Survivin expression may be associated with venous or perineural invasion, indicating metastatic route, and seems to have a potential as a predictive marker for chemotherapy. Further study of large scale is required to determine the clinical significance of survivin expression in pancreatic cancer.
Sparsity and Compressed Sensing in Radar Imaging (2010)

Remote sensing with radar is typically an ill-posed linear inverse problem: a scene is to be inferred from limited measurements of scattered electric fields. Parsimonious models provide a compressed representation of the unknown scene and offer a means for regularizing the inversion task. The emerging field of compressed sensing combines nonlinear reconstruction algorithms and pseudorandom linear measurements to provide reconstruction guarantees for sparse solutions to linear inverse problems. This paper surveys the use of sparse reconstruction algorithms and randomized measurement strategies in radar processing. Although the two themes have a long history in radar literature, the accessible framework provided by compressed sensing illuminates the impact of joining these themes. Potential future directions are conjectured both for extension of theory motivated by practice and for modification of practice based on theoretical insights.
Embryonic Stem Cell Markers (2012)

Embryonic stem cell (ESC) markers are molecules specifically expressed in ES cells. Understanding of the functions of these markers is critical for characterization and elucidation for the mechanism of ESC pluripotent maintenance and self-renewal, therefore helping to accelerate the clinical application of ES cells. Unfortunately, different cell types can share single or sometimes multiple markers; thus the main obstacle in the clinical application of ESC is to purify ES cells from other types of cells, especially tumor cells. Currently, the marker-based flow cytometry (FCM) technique and magnetic cell sorting (MACS) are the most effective cell isolating methods, and a detailed maker list will help to initially identify, as well as isolate ESCs using these methods. In the current review, we discuss a wide range of cell surface and generic molecular markers that are indicative of the undifferentiated ESCs. Other types of molecules, such as lectins and peptides, which bind to ESC via affinity and specificity, are also summarized. In addition, we review several markers that overlap with tumor stem cells (TSCs), which suggest that uncertainty still exists regarding the benefits of using these markers alone or in various combinations when identifying and isolating cells.
An introductory tour of interactive rendering (2006)

Given the depth and breadth of the field of interactive rendering, an article summarizing all the significant algorithms and hardware developments in the past few years would become a long yet shallow litany of taxonomies and terms. Instead, the author uses a selection of topics from various areas to illustrate this central theme: the influence of 3D graphics hardware on algorithm design. This article provides an understanding of consumer-level personal graphics processors and a sense of how different algorithms are developed in response to their capabilities.
Improved Method for Recovery of mRNA from Aquatic Samples and Its Application to Detection of mer Expression (1994)

Previously described methods for extraction of mRNA from environmental samples may preclude detecting transcripts from genes that were present in low abundance in aquatic bacterial communities. By combining a boiling sodium dodecyl sulfate-diethylpyrocarbonate lysis step with acid-guanidinium extraction, we improved recovery of target mRNA from both pure cultures and environmental samples. The most significant advantage of the new protocol is that it is easily adapted to yield high recovery of mRNA from 142-mm-diameter flat filters and high-capacity cartridge filters. The lysis and extraction procedures are more rapid than previously described methods, and many samples can be handled at once. RNA extracts have been shown to be free of contaminating DNA. The lysis procedure does not damage target mRNA sequences, and mRNA can be detected from fewer than 10 bacterial cells. We used the new method to examine transcripts of genes responsible for detoxification of mercurial compounds. Induction of merA (specifying mercuric reductase) transcripts in stationary-phase Pseudomonas aeruginosa containing Tn501 occurred within 60 s of HgCl(2) addition and was proportional to the amount of Hg(II) added. The new technique also allowed the detection of merA transcripts from the microbial community of a mercury-contaminated pond (Reality Lake, Oak Ridge, Tenn.). Significant differences in merA transcript abundance were observed between different locations associated with the lake. The results indicate that the new method is simple and rapid and can be applied to the study of mer gene expression of aquatic communities in their natural habitats.
Expression of recombinant firefly luciferase in prokaryotic and eukaryotic cells (1992)

Conference Article| May 01 1992 Expression of recombinant firefly luciferase in prokaryotic and eukaryotic cells GRACIELA B. SALA-NEWBY; GRACIELA B. SALA-NEWBY 1Department of Medical Biochemistry, University of Wales College of Medicine, Heath Park, Cardiff CF4 4XN, U.K. Search for other works by this author on: This Site PubMed Google Scholar ANTHONY K. CAMPBELL ANTHONY K. CAMPBELL 1Department of Medical Biochemistry, University of Wales College of Medicine, Heath Park, Cardiff CF4 4XN, U.K. Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1992) 20 (2): 143S. https://doi.org/10.1042/bst020143s Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter LinkedIn Cite Icon Cite Get Permissions Citation GRACIELA B. SALA-NEWBY, ANTHONY K. CAMPBELL; Expression of recombinant firefly luciferase in prokaryotic and eukaryotic cells. Biochem Soc Trans 1 May 1992; 20 (2): 143S. doi: https://doi.org/10.1042/bst020143s Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu nav search search input Search input auto suggest search filter All ContentAll JournalsBiochemical Society Transactions Search Advanced Search This content is only available as a PDF. © 1992 Biochemical Society1992 Article PDF first page preview Close Modal You do not currently have access to this content.