gebhart/patrepeval huggingface dataset:
Two North American Families With Hereditary Papillary Renal Carcinoma and Identical Novel Mutations in the MET Proto-Oncogene (1999)

No AccessJournal of UrologyUrological Survey: Abstracts: Renal Tumors, Retroperitoneum, Ureter, and Urinary Diversion and Reconstruction1 May 1999Two North American Families With Hereditary Papillary Renal Carcinoma and Identical Novel Mutations in the MET Proto-Oncogene L. Schmidt, K. Junker, G. Weirich, G. Glenn, P. Choyke, I. Lubensky, Z. Zhuang, M. Jeffers, G. Vande Woude, H. Neumann, M. Walther, W.M. Linehan, and B. Zbar L. SchmidtL. Schmidt More articles by this author , K. JunkerK. Junker More articles by this author , G. WeirichG. Weirich More articles by this author , G. GlennG. Glenn More articles by this author , P. ChoykeP. Choyke More articles by this author , I. LubenskyI. Lubensky More articles by this author , Z. ZhuangZ. Zhuang More articles by this author , M. JeffersM. Jeffers More articles by this author , G. Vande WoudeG. Vande Woude More articles by this author , H. NeumannH. Neumann More articles by this author , M. WaltherM. Walther More articles by this author , W.M. LinehanW.M. Linehan More articles by this author , and B. ZbarB. Zbar More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(05)69052-0AboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "Two North American Families With Hereditary Papillary Renal Carcinoma and Identical Novel Mutations in the MET Proto-Oncogene." The Journal of Urology, 161(5), p. 1737 Intramural Research Support Program, Science Applications International Corporation-Frederick, Advanced Biosciences Laboratories-Basic Research Program and Laboratory of Immunobiology, National Cancer Institute-Frederick Cancer Research and Development Center, Frederick, Urological Oncology and Genetic Epidemiology Branches, and Laboratory of Pathology, National Cancer Institute and Department of Diagnostic Radiology, National Institutes of Health, Bethesda, Maryland, and Albert Ludwig University Freiburg, Freiburg, Germany© 1999 by American Urological Association, Inc.FiguresReferencesRelatedDetails Volume 161Issue 5May 1999Page: 1737 Advertisement Copyright & Permissions© 1999 by American Urological Association, Inc.MetricsAuthor Information L. Schmidt More articles by this author K. Junker More articles by this author G. Weirich More articles by this author G. Glenn More articles by this author P. Choyke More articles by this author I. Lubensky More articles by this author Z. Zhuang More articles by this author M. Jeffers More articles by this author G. Vande Woude More articles by this author H. Neumann More articles by this author M. Walther More articles by this author W.M. Linehan More articles by this author B. Zbar More articles by this author Expand All Advertisement PDF downloadLoading ...
Use of cardiac troponin T levels as an indicator of doxorubicin-induced cardiotoxicity. (1998)

The release of cardiac troponin T (cTnT) as a biomarker of doxorubicin-induced chronic cardiac injury was evaluated in the spontaneously hypertensive rat (SHR) model. Elevations in serum levels of cTnT and decreased immunohistochemical staining of heart sections for this protein were noted in SHRs treated with cumulative doses of doxorubicin (7 mg/kg) that induced only minimal histological alterations in myocytes. Concentrations of cTnT were further elevated, coincident with reduced immunohistochemical staining, in SHRs given 10-12 mg/kg doxorubicin. Thus, monitoring serum levels of cTnT can detect doxorubicin-induced myocyte damage in SHR and may prove useful for the noninvasive evaluation of this toxicity in humans.
In vivo multispectral, multiparameter, photoacoustic lymph flow cytometry with natural cell focusing, label‐free detection and multicolor nanoparticle probes (2008)

Compared with blood tests, cell assessment in lymphatics is not well-established. The goal of this work was to develop in vivo lymph tests using the principles of flow cytometry. Cells in living animals were counted by laser (420-2,300 nm) generation of photoacoustic (PA) signals in individual cells hydrodynamically focused by lymph valves into a single file flow, and using endogenous absorption as intrinsic cell-specific markers, or gold nanorods, nanoshells, and carbon nanotubes as multicolor probes. PA data were verified by high-speed transmission, photothermal, and fluorescent imaging. Counting of melanoma and immune-related cells in normal, apoptotic, and necrotic states in lymphatics in vivo was demonstrated to have the unprecedented sensitivity as one metastatic cell among millions of white blood cells. The time-resolved PA spectral identification of flowing cells was achieved using multicolor labels and laser pulses of different wavelengths and time delays. Multiparameter, noninvasive, portable flow cytometer can be used for preclinical studies on animals with the potential of translation to humans for in vivo PA mapping of colorless lymph vessels and sentinel nodes with simultaneous single cell detection and metastasis assessment without labeling or use of contrast dyes and/or novel low-toxic multicolor probes with different absorption spectra.
Comparison of ambulatory capacity and disease progression of Duchenne muscular dystrophy subjects enrolled in the drisapersen DMD114673 study with a matched natural history cohort of subjects on daily corticosteroids (2016)

Duchenne muscular dystrophy is a rare genetic disorder with life-limiting pathology. Drisapersen induces exon 51 skipping, thereby producing a shorter but functional dystrophin protein. The longest available data are from an open-label extension study (PRO051-02) treating 12 boys with drisapersen (6 mg/kg/week subcutaneously). The median change (range) from baseline to week 177 in six-minute walking distance (6MWD) was 8 (-263, 163) metres. The current analysis aimed to put the results from PRO051-02 in the context of natural progression by comparing the functional trajectory of drisapersen-treated subjects to a matched natural history (NH) cohort, treated by standard of care. Subjects were matched individually by age and 6MWD, as the primary analysis, and by age and rise from floor (RFF), as sensitivity analysis. A total of 75 NH subjects were available for 6MWD analysis, of which matching was possible for 9 ambulant drisapersen-treated subjects. None of the 6 "stable" (baseline 6MWD ≥330 metres) drisapersen-treated subjects lost ambulation vs 4 out of 10 matched NH subjects over a comparable timeframe (~3.4 years), compared with 2 out of 3 ambulant "in decline" drisapersen-treated subjects vs all 6 matched NH subjects. A total of 79 NH subjects were available for RFF analysis. For continuous ambulatory subjects (N = 4), the RFF decline was more pronounced in the NH cohort than in the drisapersen-treated subjects. In conclusion, a comparison of ambulant drisapersen-treated subjects with matched NH subjects showed a difference in functional trajectories over a timeframe of up to 3.4 years in favour of drisapersen.
Airborne vision‐based mapping and classification of large farmland environments (2010)

Abstract This paper presents a framework for integrating sensor information from an inertial measuring unit (IMU), global positioning system (GPS) receiver, and monocular vision camera mounted to a low‐flying unmanned aerial vehicle (UAV) for producing large‐scale terrain reconstructions and classifying different species of vegetation within the environment. The reconstruction phase integrates all of the sensor information using a statistically optimal nonlinear least‐squares bundle adjustment algorithm to estimate vehicle poses simultaneously to a highly detailed point feature map of the terrain. The classification phase uses feature descriptors based on the color and texture properties of vegetation observed in the vision data and uses the terrain information to build a georeferenced map of different types of vegetation. The resulting system can be used for a range of environmental monitoring missions such as invasive plant detection and biomass mapping. Experimental results of the algorithms are demonstrated in a “weed‐finding” mission over a large farmland area of the Australian outback. © 2010 Wiley Periodicals, Inc.
A novel mechanism of phase variation of virulence in Staphylococcus epidermidis: evidence for control of the polysaccharide intercellular adhesin synthesis by alternating insertion and excision of the insertion sequence element IS256 (1999)

Biofilm formation of Staphylococcus epidermidis on smooth polymer surfaces has been shown to be mediated by the ica operon. Upon activation of this operon, a polysaccharide intercellular adhesin (PIA) is synthesized that supports bacterial cell-to-cell contacts and triggers the production of thick, multilayered biofilms. Thus, the ica gene cluster represents a genetic determinant that significantly contributes to the virulence of specific Staphylococcus epidermidis strains. PIA synthesis has been reported recently to undergo a phase variation process. In this study, biofilm-forming Staphylococcus epidermidis strains and their PIA-negative phase variants were analysed genetically to investigate the molecular mechanisms of phase variation. We have characterized biofilm-negative variants by Southern hybridization with ica-specific probes, polymerase chain reaction and nucleotide sequencing. The data obtained in these analyses suggested that in approximately 30% of the variants the missing biofilm formation was due to the inactivation of either the icaA or the icaC gene by the insertion of the insertion sequence element IS256. Furthermore, it was shown that the transposition of IS256 into the ica operon is a reversible process. After repeated passages of the PIA-negative insertional mutants, the biofilm-forming phenotype could be restored. Nucleotide sequence analyses of the revertants confirmed the complete excision of IS256, including the initially duplicated 8 bp target sites. These results elucidate, for the first time, a molecular mechanism mediating phase variation in staphylcocci, and they demonstrate that a naturally occurring insertion sequence element is actively involved in the modulation of expression of a Staphylococcus virulence factor.
Ketofol-Dexmedetomidine combination in ECT: A punch for depression and agitation (2014)

Ketofol-dex mixture in ECT is associated with longer mean seizure duration, effective anti-depression, less incidence of agitation, more patient satisfaction, and acceptable decreases in blood pressure and HR when compared to ketofol alone.
Lattice and trellis quantization with lattice- and trellis-bounded codebooks-High-rate theory for memoryless sources (1993)

High-rate lattice and trellis quantizers for nonuniform sources are introduced and analyzed. The performance of these quantizers is determined by two separable quantities, the granular gain and the boundary gain, which are determined by the shapes of the granular cells and of the support region, respectively. The granular gain and boundary gain are the duals of shaping and coding gain in data transmission applications. Using this duality, it is shown for Gaussian sources that the ultimate achievable boundary gain with high-rate lattice-bounded lattice codebooks is the same as the ultimate gain that can be obtained from variable-rate entropy coding. It is observed that if lattice codebooks can achieve the ultimate granular gain of 0.255 b per dimension, then lattice-bounded lattice codebooks can approach the rate-distortion limit. The performance of lattice quantizers is compared to that of optimum vector quantizers.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Deriving traffic demands for operational IP networks: methodology and experience (2001)

Engineering a large IP backbone network without an accurate network-wide view of the traffic demands is challenging. Shifts in user behavior, changes in routing policies, and failures of network elements can result in significant (and sudden) fluctuations in load. We present a model of traffic demands to support traffic engineering and performance debugging of large Internet service provider networks. By defining a traffic demand as a volume of load originating from an ingress link and destined to a set of egress links, we can capture and predict how routing affects the traffic traveling between domains. To infer the traffic demands, we propose a measurement methodology that combines flow-level measurements collected at all ingress links with reachability information about all egress links. We discuss how to cope with situations where practical considerations limit the amount and quality of the necessary data. Specifically, we show how to infer interdomain traffic demands using measurements collected at a smaller number of edge links-the peering links connecting to neighboring providers. We report on our experiences in deriving the traffic demands in the AT&T IP Backbone, by collecting, validating, and joining very large and diverse sets of usage, configuration, and routing data over extended periods of time. The paper concludes with a preliminary analysis of the observed dynamics of the traffic demands and a discussion of the practical implications for traffic engineering.
A Robust Human Detection and Tracking System Using a Human-Model-Based Camera Calibration (2008)

International audience
Algorithms that learn to extract information (1996)

All of BBN's research under the TIPSTER III program has focused on doing extraction by applying statistical models trained on annotated data, rather than by using programs that execute hand-written rules. Within the context of MUC-7, the SIFT system for extraction of template entities (TE) and template relations (TR) used a novel, integrated syntactic/semantic language model to extract sentence level information, and then synthesized information across sentences using in part a trained model for cross-sentence relations. At the named entity (NE) level as well, in both MET-1 and MUC-7, BBN employed a trained, HMM-based model.The results in these TIPSTER evaluations are evidence that such trained systems, even at their current level of development, can perform roughly on a par with those based on rules hand-tailored by experts. In addition, such trained systems have some significant advantages:• They can be easily ported to new domains by simply annotating fresh data.• The complex interactions that make rule-based systems difficult to develop and maintain can here be learned automatically from the training data.We believe that improved and extended versions of such trained models have the potential for significant further progress toward practical systems for information extraction.
The concepts of stress and stress system disorders. Overview of physical and behavioral homeostasis. (1992)

We hope that knowledge from apparently disparate fields of science and medicine integrated into a working theoretical framework will allow generation and testing of new hypotheses on the pathophysiology and diagnosis of, and therapy for, a variety of human illnesses reflecting systematic alterations in the principal effectors of the generalized stress response. We predict that pharmacologic agents capable of altering the central apparatus that governs the stress response will be useful in the treatment of many of these illnesses.
Past Presidents' Award for Merit in Transportation Engineering: Assessing Transportation Policy Using an Activity-Based Microsimulation Model of Travel Demand (2006)

For over 50 years, travel demand models have provided decision support for transportation infrastructure planning. However, the current emphasis on travel demand management policies, which allows for more efficient use of existing road and transit capacity, requires improved methods of analysis. This paper presents a new operational prototype microsimulation model of travel and activity scheduling for household agents (TASHA). This model provides more precise outputs than current state-of-practice models with little increase in supporting data requirements. The functionality of the model is summarized. The model is well-suited to assess alternative hours (e.g., flexible working hours and telecommuting), high-occupancy vehicle lanes and intelligent transportation system initiatives. The model is applied to several transportation policy problems in Toronto to demonstrate the potential benefits of the TASHA modeling approach. The model shows significant promise, although more research is needed before the TASHA system is ready for large-scale implementation.
Robot phonotaxis with dynamic sound-source localization (2004)

We address two key goals pertaining to autonomous mobile robots: one, to develop fast accurate sensory capabilities - at present, the localization of sound sources - and second, the integration of such sensory modules with other robot functions, especially its motor control and navigation. A primary motivation for this work was to devise effective means to guide robotic navigation in environments with acoustic sources. We designed and built a biomimetic sound-source localization apparatus. In contrast to the popular use of time-of-arrival differences in free field microphone arrays, our system is based on the principles observed in nature, where directional acoustic sensing evolved to rely on diffraction about the head with only two ears. In this paper we present an integrated robot phonotaxis system which utilizes the robot's movement to resolve frontback localization ambiguity. Our system achieves high angular localization acuity (/spl plusmn/ 2/spl deg/) and it was successfully tested in localizing a single broadband source and moving towards it within a cluttered laboratory environment.
A new model for packing of type-I collagen molecules in the native fibril (1981)

A specific fibril model is presented consisting of bundles of five-stranded microfibrils, which are usually disordered (except axially) but under lateral compression become ordered. The features are as follows (where D = 234 residues or 67 nm): (1) D-staggered collagen molecules 4.5 D long in the helical microfibril have a left-handed supercoil with a pitch of 400-700 residues, but microfibrils need not have helical symmetry. (2) straight-tilted 0.5-D overlap regions on a near-hexagonal lattice contribute the discrete x-ray diffraction reflections arising from lateral order, while the gap regions remain disordered. (3) The overlap regions are equivalent, but are crystallographically distinguished by systematic displacements from the near-hexagonal lattice. (4) The unit cell is the same as in a recently proposed three-dimensional crystal model, and calculated intensities in the equatorial region of the x-ray diffraction pattern agree with observed values.
Affinity purification of sequence-specific DNA binding proteins. (1986)

We describe a method for affinity purification of sequence-specific DNA binding proteins that is fast and effective. Complementary chemically synthesized oligodeoxynucleotides that contain a recognition site for a sequence-specific DNA binding protein are annealed and ligated to give oligomers. This DNA is then covalently coupled to Sepharose CL-2B with cyanogen bromide to yield the affinity resin. A partially purified protein fraction is combined with competitor DNA and subsequently passed through the DNA-Sepharose resin. The desired sequence-specific DNA binding protein is purified because it preferentially binds to the recognition sites in the affinity resin rather than to the nonspecific competitor DNA in solution. For example, a protein fraction that is enriched for transcription factor Sp1 can be further purified 500- to 1000-fold by two sequential affinity chromatography steps to give Sp1 of an estimated 90% homogeneity with 30% yield. In addition, the use of tandem affinity columns containing different protein binding sites allows the simultaneous purification of multiple DNA binding proteins from the same extract. This method provides a means for the purification of rare sequence-specific DNA binding proteins, such as Sp1 and CAAT-binding transcription factor.
Coupling of the anthracycline antitumor drug menogaril to 2'-deoxyguanosine through reductive activation (1989)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCoupling of the anthracycline antitumor drug menogaril to 2'-deoxyguanosine through reductive activationMichael Egholm and Tad H. KochCite this: J. Am. Chem. Soc. 1989, 111, 21, 8291–8293Publication Date (Print):October 1, 1989Publication History Published online1 May 2002Published inissue 1 October 1989https://pubs.acs.org/doi/10.1021/ja00203a047https://doi.org/10.1021/ja00203a047research-articleACS PublicationsRequest reuse permissionsArticle Views135Altmetric-Citations42LEARN 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
Sephadex-binding RNA ligands: rapid affinity purification of RNA from complex RNA mixtures (2001)

Sephadex-binding RNA ligands (aptamers) were obtained through in vitro selection. They could be classified into two groups based on their consensus sequences and the aptamers from both groups showed strong binding to Sephadex G-100. One of the highest affinity aptamers, D8, was chosen for further characterization. Aptamer D8 bound to dextran B512, the soluble base material of Sephadex, but not to isomaltose, isomaltotriose and isomaltotetraose, suggesting that its optimal binding site might consist of more than four glucose residues linked via alpha-1,6 linkages. The aptamer was very specific to the Sephadex matrix and did not bind appreciably to other supporting matrices, such as Sepharose, Sephacryl, cellulose or pustulan. Using Sephadex G-100, the aptamer could be purified from a complex mixture of cellular RNA, giving an enrichment of at least 60 000-fold, compared with a non-specific control RNA. These RNA aptamers can be used as affinity tags for RNAs or RNA subunits of ribonucleoproteins to allow rapid purification from complex mixtures of RNA using only Sephadex.
Role of single‐stranded DNA regions and Y‐box proteins in transcriptional regulation of viral and cellular genes (1998)

Single-stranded regions, known to be important for optimal rates of transcription, have been observed in the promoters of several cellular genes as well as in the promoters of many pathogenic viruses. Several host-encoded, single-stranded DNA binding proteins capable of binding these regions have been purified and their genes isolated. In this review, information available about single-stranded regions present within various promoters and the interaction of a novel class of single-stranded DNA binding transcription factors belonging to the Y-box family of proteins is reviewed. Mechanisms by which these proteins influence transcription of both cellular and viral genes are proposed.