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Mantero J, Szegedi E, Payne Hallström L, Lenglet A, Depoortere E, Kaic B, Blumberg L, Linge JP, Coulombier D. Enhanced epidemic intelligence using a web-based screening system during the 2010 FIFA World Cup in South Africa. Euro Surveill 2014; 19. [DOI: 10.2807/1560-7917.es2014.19.18.20796] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Binary file ES_Abstracts_Final_ECDC.txt matches
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Affiliation(s)
- J Mantero
- Epidemic Intelligence group, European Centre for Disease Prevention and Control (ECDC), Stockholm, Sweden
| | - E Szegedi
- Epidemic Intelligence group, European Centre for Disease Prevention and Control (ECDC), Stockholm, Sweden
| | - L Payne Hallström
- Surveillance and Response Support Unit, European Centre for Disease Prevention and Control (ECDC), Stockholm, Sweden
| | - A Lenglet
- Surveillance and Response Support Unit, European Centre for Disease Prevention and Control (ECDC), Stockholm, Sweden
| | - E Depoortere
- Surveillance and Response Support Unit, European Centre for Disease Prevention and Control (ECDC), Stockholm, Sweden
| | - B Kaic
- Croatian National Institute of Public Health, Zagreb, Croatia (deployed at ECDC during the 2010 FIFA World Cup)
| | - L Blumberg
- Division of Public Health Surveillance and Response, National Institute for Communicable Diseases (NICD), Johannesburg, South Africa
| | - J P Linge
- Global Security & Crisis Management Unit, Joint Research Centre of the European Commission, Ispra, Italy
| | - D Coulombier
- Surveillance and Response Support Unit, European Centre for Disease Prevention and Control (ECDC), Stockholm, Sweden
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Hartley DM, Nelson NP, Arthur RR, Barboza P, Collier N, Lightfoot N, Linge JP, van der Goot E, Mawudeku A, Madoff LC, Vaillant L, Walters R, Yangarber R, Mantero J, Corley CD, Brownstein JS. An overview of internet biosurveillance. Clin Microbiol Infect 2013; 19:1006-13. [PMID: 23789639 DOI: 10.1111/1469-0691.12273] [Citation(s) in RCA: 59] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Internet biosurveillance utilizes unstructured data from diverse web-based sources to provide early warning and situational awareness of public health threats. The scope of source coverage ranges from local media in the vernacular to international media in widely read languages. Internet biosurveillance is a timely modality that is available to government and public health officials, healthcare workers, and the public and private sector, serving as a real-time complementary approach to traditional indicator-based public health disease surveillance methods. Internet biosurveillance also supports the broader activity of epidemic intelligence. This overview covers the current state of the field of Internet biosurveillance, and provides a perspective on the future of the field.
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Affiliation(s)
- D M Hartley
- Imaging Science and Information Systems Center, Georgetown University School of Medicine, Washington, DC, USA; Department of Microbiology and Immunology, Georgetown University Medical Center, Washington, DC, USA
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Hartley DM, Nelson NP, Walters R, Arthur R, Yangarber R, Madoff L, Linge JP, Mawudeku A, Collier N, Brownstein JS, Thinus G, Lightfoot N. Landscape of international event-based biosurveillance. Emerg Health Threats J 2010; 3:e3. [PMID: 22460393 PMCID: PMC3167659 DOI: 10.3134/ehtj.10.003] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Download PDF] [Subscribe] [Scholar Register] [Received: 07/09/2009] [Revised: 11/17/2009] [Accepted: 01/12/2010] [Indexed: 11/18/2022]
Abstract
Event-based biosurveillance is a scientific discipline in which diverse sources of data, many of which are available from the Internet, are characterized prospectively to provide information on infectious disease events. Biosurveillance complements traditional public health surveillance to provide both early warning of infectious disease events and situational awareness. The Global Health Security Action Group of the Global Health Security Initiative is developing a biosurveillance capability that integrates and leverages component systems from member nations. This work discusses these biosurveillance systems and identifies needed future studies.
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Affiliation(s)
- DM Hartley
- Imaging Science and Information Systems Center, Georgetown University School of Medicine, Washington, DC, USA
| | - NP Nelson
- Georgetown University School of Medicine, Washington, DC, USA
| | - R Walters
- Pacific Northwest National Laboratory, Richland, WA, USA
| | - R Arthur
- Centers for Disease Control and Prevention, Atlanta, GA, USA
| | - R Yangarber
- Department of Computer Science, University of Helsinki, Helsinki, Finland
| | - L Madoff
- University of Massachusetts Medical School, Worcester, MA, USA
| | - JP Linge
- Joint Research Centre, European Commission, Ispra, Italy
| | - A Mawudeku
- Public Health Agency of Canada, Ottawa, Ontario, Canada
| | - N Collier
- National Institute of Informatics, Tokyo, Japan
| | - JS Brownstein
- Children's Hospital Boston, Harvard Medical School, Boston, MA, USA
| | - G Thinus
- Imaging Science and Information Systems Center, Georgetown University School of Medicine, Washington, DC, USA
| | - N Lightfoot
- Georgetown University School of Medicine, Washington, DC, USA
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Linge JP, Steinberger R, Weber TP, Yangarber R, van der Goot E, Al Khudhairy DH, Stilianakis NI. Internet surveillance systems for early alerting of health threats. Euro Surveill 2009. [DOI: 10.2807/ese.14.13.19162-en] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
In order to gather a comprehensive picture of potential epidemic threats, public health authorities increasingly rely on systems that perform epidemic intelligence (EI). EI makes use of information that originates from official sources such as national public health surveillance systems as well as from informal sources such as electronic media and web-based information tools.
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Affiliation(s)
- J P Linge
- Joint Research Centre (JRC), European Commission, Ispra (VA), Italy
| | - R Steinberger
- Joint Research Centre (JRC), European Commission, Ispra (VA), Italy
| | - T P Weber
- Joint Research Centre (JRC), European Commission, Ispra (VA), Italy
| | - R Yangarber
- Department of Computer Science, University of Helsinki, Helsinki, Finland
| | - E van der Goot
- Joint Research Centre (JRC), European Commission, Ispra (VA), Italy
| | - D H Al Khudhairy
- Joint Research Centre (JRC), European Commission, Ispra (VA), Italy
| | - N I Stilianakis
- Joint Research Centre (JRC), European Commission, Ispra (VA), Italy
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Linge JP, Steinberger R, Weber TP, Yangarber R, van der Goot E, Al Khudhairy DH, Stilianakis NI. Internet surveillance systems for early alerting of health threats. Euro Surveill 2009; 14:19162. [PMID: 19341610] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/27/2023] Open
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Affiliation(s)
- J P Linge
- Structural Biology Programme, European Molecular Biology Laboratory, Heidelberg D-69117, Germany
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Sprangers R, Bottomley MJ, Linge JP, Schultz J, Nilges M, Sattler M. Refinement of the protein backbone angle psi in NMR structure calculations. J Biomol NMR 2000; 16:47-58. [PMID: 10718612 DOI: 10.1023/a:1008344715812] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Cross-correlated relaxation rates involving the Calpha-Halpha dipolar interaction and the carbonyl (C') chemical shift anisotropy (CSA) have been measured using two complementary 3D experiments. We show that the protein backbone angle psi can be directly refined against such cross-correlated relaxation rates (gammaHalphaCalpha,C') and the three-bond H/D isotope effect on the Calpha chemical shifts (3 deltaCalpha(ND)). By simultaneously using both experimental parameters as restraints during NMR structure calculations, a unique value for the backbone angle psi is defined. We have applied the new refinement method to the alpha-Spectrin SH3 domain (a beta-sheet protein) and to the Sgs1p HRDC domain (an alpha-helical protein) and show that the quality of the NMR structures is substantially improved, judging from the atomic coordinate precision and the Ramachandran map. In addition, the psi-refined NMR structures of the SH3 domain deviate less from the 1.8 A crystal structure, suggesting an improved accuracy. The proposed refinement method can be used to significantly improve the quality of NMR structures and will be applicable to larger proteins.
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Affiliation(s)
- R Sprangers
- European Molecular Biology Laboratory, Heidelberg, Germany
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Liu Z, Macias MJ, Bottomley MJ, Stier G, Linge JP, Nilges M, Bork P, Sattler M. The three-dimensional structure of the HRDC domain and implications for the Werner and Bloom syndrome proteins. Structure 1999; 7:1557-66. [PMID: 10647186 DOI: 10.1016/s0969-2126(00)88346-x] [Citation(s) in RCA: 106] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
BACKGROUND The HRDC (helicase and RNaseD C-terminal) domain is found at the C terminus of many RecQ helicases, including the human Werner and Bloom syndrome proteins. RecQ helicases have been shown to unwind DNA in an ATP-dependent manner. However, the specific functional roles of these proteins in DNA recombination and replication are not known. An HRDC domain exists in both of the human RecQ homologues that are implicated in human disease and may have an important role in their function. RESULTS We have determined the three-dimensional structure of the HRDC domain in the Saccharomyces cerevisiae RecQ helicase Sgs1p by nuclear magnetic resonance (NMR) spectroscopy. The structure resembles auxiliary domains in bacterial DNA helicases and other proteins that interact with nucleic acids. We show that a positively charged region on the surface of the Sgs1p HRDC domain can interact with DNA. Structural similarities to bacterial DNA helicases suggest that the HRDC domain functions as an auxiliary domain in RecQ helicases. Homology models of the Werner and Bloom HRDC domains show different surface properties when compared with Sgs1p. CONCLUSIONS The HRDC domain represents a structural scaffold that resembles auxiliary domains in proteins that are involved in nucleic acid metabolism. In Sgs1p, the HRDC domain could modulate the helicase function via auxiliary contacts to DNA. However, in the Werner and Bloom syndrome helicases the HRDC domain may have a role in their functional differences by mediating diverse molecular interactions.
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Affiliation(s)
- Z Liu
- European Molecular Biology Laboratory, Heidelberg, Germany
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Abstract
StarDOM is a software package for the representation of STAR files as document object models and the conversion of STAR files into XML. This allows interactive navigation by using the Document Object Model representation of the data as well as easy access by XML query languages. As an example application, the entire BioMagResBank has been transformed into XML format. Using an XML query language, statistical queries on the collected NMR data sets can be constructed with very little effort. The BioMagResBank/XML data and the software can be obtained at http://www.nmr.embl-heidelberg.de/nmr/StarDOM linge@embl-heidelberg.de
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Affiliation(s)
- J P Linge
- European Molecular Biology Laboratory, Meyerhofstrasse 1, D-69012 Heidelberg, Germany
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Linge JP, Nilges M. Influence of non-bonded parameters on the quality of NMR structures: a new force field for NMR structure calculation. J Biomol NMR 1999; 13:51-9. [PMID: 10905826 DOI: 10.1023/a:1008365802830] [Citation(s) in RCA: 215] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
The effects of different non-bonded parameters of force fields for NMR structure calculation on the quality of the resulting NMR solution structures were investigated using Interleukin 4 as a model system. NMR structure ensembles were calculated with an ab initio protocol using torsion angle dynamics. The calculations were repeated with five different non-bonded energy functions and parameters. The resulting ensembles were compared with the available X-ray structures, and their quality was assessed with common structure validation programs. In addition, the impact of torsion angle restraints and dihedral energy terms for the sidechains and the backbone was studied. The further improvement of the quality by refinement in explicit solvent was demonstrated. The optimal parameters, including those necessary for water refinement, are available in the new version of the PARALLHDG force field.
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Affiliation(s)
- J P Linge
- European Molecular Biology Laboratory, Meyerhofstrassee 1, D-69012 Heidelberg, Germany
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