| 1. |
- Sodergren, Erica, et al.
(author)
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The genome of the sea urchin Strongylocentrotus purpuratus.
- 2006
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In: Science. - : American Association for the Advancement of Science (AAAS). - 1095-9203 .- 0036-8075. ; 314:5801, s. 941-52
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Journal article (peer-reviewed)abstract
- We report the sequence and analysis of the 814-megabase genome of the sea urchin Strongylocentrotus purpuratus, a model for developmental and systems biology. The sequencing strategy combined whole-genome shotgun and bacterial artificial chromosome (BAC) sequences. This use of BAC clones, aided by a pooling strategy, overcame difficulties associated with high heterozygosity of the genome. The genome encodes about 23,300 genes, including many previously thought to be vertebrate innovations or known only outside the deuterostomes. This echinoderm genome provides an evolutionary outgroup for the chordates and yields insights into the evolution of deuterostomes.
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| 2. |
- Alzari, Pedro M., et al.
(author)
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Implementation of semi-automated cloning and prokaryotic expression screening : the impact of SPINE
- 2006
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In: Acta Crystallographica Section D. - 0907-4449 .- 1399-0047. ; 62, s. 1103-1113
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Journal article (peer-reviewed)abstract
- The implementation of high- throughput ( HTP) cloning and expression screening in Escherichia coli by 14 laboratories in the Structural Proteomics In Europe ( SPINE) consortium is described. Cloning efficiencies of greater than 80% have been achieved for the three non- ligation- based cloning techniques used, namely Gateway, ligation- indendent cloning of PCR products ( LIC- PCR) and In- Fusion, with LIC- PCR emerging as the most cost- effective. On average, two constructs have been made for each of the approximately 1700 protein targets selected by SPINE for protein production. Overall, HTP expression screening in E. coli has yielded 32% soluble constructs, with at least one for 70% of the targets. In addition to the implementation of HTP cloning and expression screening, the development of two novel technologies is described, namely library- based screening for soluble constructs and parallel small- scale high- density fermentation.
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| 3. |
- Krebs, Frederik C, et al.
(author)
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A round robin study of flexible large-area roll-to-roll processed polymer solar cell modules
- 2009
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In: SOLAR ENERGY MATERIALS AND SOLAR CELLS. - : Elsevier BV. - 0927-0248. ; 93:11, s. 1968-1977
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Journal article (peer-reviewed)abstract
- A round robin for the performance of roll-to-roll coated flexible large-area polymer solar-cell modules involving 18 different laboratories in Northern America, Europe and Middle East is presented. The study involved the performance measurement of the devices at one location (Riso DTU) followed by transportation to a participating laboratory for performance measurement and return to the starting location (Riso DTU) for re-measurement of the performance. It was found possible to package polymer solar-cell modules using a flexible plastic barrier material in such a manner that degradation of the devices played a relatively small role in the experiment that has taken place over 4 months. The method of transportation followed both air-mail and surface-mail paths.
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| 4. |
- Garcia-Amado, M. Alexandra, et al.
(author)
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Non-pylori Helicobacteraceae in the upper digestive tract of asymptomatic venezuelan subjects: Detection of helicobacter cetorum-like and candidatus Wolinella africanus-like DNA
- 2007
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In: Helicobacter. - : Wiley. - 1083-4389 .- 1523-5378. ; 12:5, s. 553-558
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Journal article (peer-reviewed)abstract
- Background: The spectrum of human non-pylori Helicobacter infections is expanding, with species such as H. heilmannii and H. felis occasionally being associated with gastritis. However, the existence of non-pylori Helicobacter colonization in asymptomatic subjects has not been evaluated. The aim of this study was to investigate whether Helicobacter species other than pylori are present in the upper digestive tract of asymptomatic human subjects. Materials and methods: A Helicobacteraceae-specific semi-nested polymerase chain reaction (PCR) assay was used to detect Helicobacter-like organisms in the upper digestive tract of 91 Venezuelan volunteers (aged 18-68 years, 41 females, 50 males). Species were identified by denaturing gradient gel electrophoresis analysis and sequencing of the PCR products. Results: We detected DNA sharing 99-100% sequence identity in over 300-400 bp with the 16S rRNA genes of H. pylori, H. cetorum, and Candidatus Wolinella africanus in 76%, 16%, and 15% of the subjects, respectively. Multiple colonization was documented in 10% of the subjects: H. cetorum and Candidatus W. africanus (4%), H. pylori and Candidatus W. africanus (4%), and H. pylori and H. cetorum (2%). Conclusions: Our results suggest that non-pylori Helicobacteraceae colonization is relatively common in the Venezuelan asymptomatic population. This is the first report documenting the presence of H. cetorum DNA in the human upper digestive tract, and the second report of the recently discovered Candidatus W. africanus.
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| 5. |
- Hindie, Valerie, et al.
(author)
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Structure and allosteric effects of low-molecular-weight activators on the protein kinase PDK1.
- 2009
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In: Nature Chemical Biology. - : Springer Science and Business Media LLC. - 1552-4450 .- 1552-4469. ; 5:10
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Journal article (peer-reviewed)abstract
- Protein phosphorylation transduces a large set of intracellular signals. One mechanism by which phosphorylation mediates signal transduction is by prompting conformational changes in the target protein or interacting proteins. Previous work described an allosteric site mediating phosphorylation-dependent activation of AGC kinases. The AGC kinase PDK1 is activated by the docking of a phosphorylated motif from substrates. Here we present the crystallography of PDK1 bound to a rationally developed low-molecular-weight activator and describe the conformational changes induced by small compounds in the crystal and in solution using a fluorescence-based assay and deuterium exchange experiments. Our results indicate that the binding of the compound produces local changes at the target site, the PIF binding pocket, and also allosteric changes at the ATP binding site and the activation loop. Altogether, we present molecular details of the allosteric changes induced by small compounds that trigger the activation of PDK1 through mimicry of phosphorylation-dependent conformational changes.
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| 6. |
- Antikainen, Riitta L., et al.
(author)
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Trends in the prevalence, awareness, treatment and control of hypertension: the WHO MONICA Project
- 2006
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In: European Journal of Cardiovasclar Prevention & Rehabilitation. - 1741-8267. ; 13:1, s. 13-29
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Journal article (peer-reviewed)abstract
- OBJECTIVE: To describe the secular changes in the prevalence, awareness, treatment and control of hypertension. DESIGN: Two independent cross-sectional population surveys using standardized methods conducted between the early 1980s and mid-1990s. SETTING: Twenty-four geographically defined populations of the WHO MONICA Project. PARTICIPANTS: Randomly selected men and women aged 35-64 years. The total number of participants was 69 907. MAIN OUTCOME MEASURES: Two definitions of hypertension were used: 160/95 mmHg or above and 140/90 mmHg or above for systolic or diastolic blood pressure. Subjects on antihypertensive drug treatment were considered to be hypertensive regardless of their blood pressure. Treated subjects whose measured blood pressure level was less than 160/95 or 140/90 mmHg according to the two definitions, respectively, were considered to be adequately treated. RESULTS: The age-adjusted prevalence of hypertension decreased in most and increased in only a few populations. For both definitions of hypertension, the proportion of hypertensive subjects who were aware of their condition increased in three-quarters of the male populations and in two-thirds of the female populations. Furthermore, the proportion of hypertensive individuals on antihypertensive drug treatment increased in three-quarters of the populations. In the final survey, hypertension tended to be better treated and controlled in women than in men. Nevertheless, a large proportion of patients receiving antihypertensive drug therapy still had inadequately controlled blood pressure levels. CONCLUSION: Although awareness and treatment of hypertension according to the data obtained during the late 1980s to the mid-1990s increased in several populations, the effectiveness of antihypertensive treatment showed the continuing need for improvements.
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| 7. |
- Borges Vieira, Alex, et al.
(author)
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Modelo de Comportamento dos Participantes do SopCast
- 2009
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In: WebMedia 2009. - New York, NY, USA : ACM. - 9781605588803
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Conference paper (peer-reviewed)abstract
- Apesar da crescente popularidade das aplica¸c˜oes de transmiss ˜ao de m´ıdia cont´ınua ao vivo em P2P, a compreens˜ao atual de aspectos importantes do comportamento dos participantes, como o intervalo de chegada entre eles e tempo de permanˆencia na rede, ainda ´e limitada. Este trabalho pretende preencher esta lacuna apresentando uma caracteriza ¸c˜ao do comportamento dos participantes no SopCast, uma das aplica¸c˜oes mais populares de transmiss˜ao ao vivo sobre P2P. A an´alise apresentada inclui propriedades relativas `a sess˜ao, tais como intervalos entre chegada de novos participantes, tempo de permanˆencia, n´umero de sess˜oes q e tempo de inatividade entre sess˜oes. Tamb´em s˜ao apresentadas propriedades das parcerias entre os participantes, como n´umero de parceiros e suas dura¸c˜oes. Al´em disso, o estudo apresentado compreende diferentes canais do Sop- Cast, destacando diferen¸cas nos padr˜oes de comportamento dependendo do conte´udo. As caracteriza¸c˜oes apresentadas definem um modelo dos participantes, que pode ser usado como base para cria¸c˜ao de novos protocolos e gera¸c˜ao de cargas sint´eticas realistas para transmiss˜ao ao vivo em P2P.
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