Fuentes de información digitales en los centros de documentación de prensa: las bases de datos comerciales.

Se describe en primer lugar el contexto general de la utilización de las fuentes de información externas en soporte digital en los centros de documentación de los medios de comunicación de prensa escrita. A continuación se presentan y comentan los resultados de una encuesta realizada entre los principales medios españoles sobre los recursos electrónicos externos comerciales de que disponen. Por último, se analiza brevemente cada producto informativo.

My News, la hemeroteca digital de la prensa española

My News, un servicio de información de prensa desarrollado en España que ofrece el texto completo de diversas publicaciones, en especial de medios de prensa escrita de ámbito nacional, presenta un interfaz renovado con nuevas funcionalidades. Se describen sus orígenes, evolución y características actuales y se analizan las nuevas prestaciones de búsqueda en su hemeroteca y de seguimiento de prensa y creación de alertas.

Measuring researchers' use of scholarly information through social bookmarking data: a case study of BibSonomy

This paper explores the possibility of using data from social bookmarking services to measure the use of information by academic researchers. Social bookmarking data can be used to augment participative methods (e.g. interviews and surveys) and other, non-participative methods (e.g. citation analysis and transaction logs) to measure the use of scholarly information. We use BibSonomy, a free resource-sharing system, as a case study. Results show that published journal articles are by far the most popular type of source bookmarked, followed by conference proceedings and books. Commercial journal publisher platforms are the most popular type of information resource bookmarked, followed by websites, records in databases and digital repositories. Usage of open access information resources is low in comparison with toll access journals. In the case of open access repositories, there is a marked preference for the use of subject-based repositories over institutional repositories. The results are consistent with those observed in related studies based on surveys and citation analysis, confirming the possible use of bookmarking data in studies of information behaviour in academic settings. The main advantages of using social bookmarking data are that is an unobtrusive approach, it captures the reading habits of researchers who are not necessarily authors, and data are readily available. The main limitation is that a significant amount of human resources is required in cleaning and standardizing the data.

Estudio de la accesibilidad de los documentos cientificos en soporte digital

Resumen: El artículo analiza los problemas de accesibilidad que actualmente presentan los artículos científicos en soporte digital. El estudio se centra en los aspectos de facilidad de uso del contenido de los documentos digitales según la forma en que se publiquen, sin entrar en el estudio de los distintos sistemas de recuperación. Se analizan los dos formatos más utilizados para la publicación de artículos científicos en soporte digital: HTML y PDF, estudiando el desempeño lector en relación a la presencia de sumarios o de tablas internas o vinculadas. El estudio se ha realizado con dos colectivos: 30 sujetos ciegos, usuarios de Jaws, contactados gracias a la mediación de la Fundación ONCE, y 30 sujetos no ciegos, profesores del Departamento de Biblioteconomía y Documentación de la Universidad de Barcelona. El estudio muestra que la localización de los datos contenidos en tablas se ve facilitada en documentos HTML por la inclusión de un sumario que vincule con la tabla, así como la inclusión de tablas completas en el cuerpo del documento HTML facilita la actividad lectora por parte de los usuarios ciegos. A nivel metodológico la presente investigación aporta dos novedades relevantes respecto a la literatura existente en los estudios de usabilidad con ciegos: estudia la usabilidad del formato PDF y es un test de usabilidad cuantitativo; este último hecho dificulta su comparación con la mayoría de artículos publicados. Abstract: This paper analyses the problems of accessibility posed by scientific articles published in digital format, focusing on the ease of use of their content with respect to the form in which they are published (irrespective of the recovery system). The two most widely used formats for the publication of scientific articles in digital format, HTML and PDF, are analysed, examining reader performance in relation to the presence of contents lists or internal or linked tables. The study involved two groups: 30 blind subjects, all JAWS users, contacted through the ONCE Foundation, and 30 sighted subjects, lecturers in the Department of Librarianship and Documentation of the University of Barcelona. The results shows the location of data in tables is easier in HTML documents through the inclusion of a contents list linked to these tables. Further, the inclusion of complete tables in the body of HTML document facilitates the reading activity of blind users. At the methodological level, this work reports two novelties with respect to the existing literature on usability by blind people: it examines the usability of the PDF format, and discusses a quantitative usability test. The latter hinders comparison with the majority of published articles.

Defining new criteria for selection of cell-based intestinal models using publicly available databases.

BACKGROUND: The criteria for choosing relevant cell lines among a vast panel of available intestinal-derived lines exhibiting a wide range of functional properties are still ill-defined. The objective of this study was, therefore, to establish objective criteria for choosing relevant cell lines to assess their appropriateness as tumor models as well as for drug absorption studies. RESULTS: We made use of publicly available expression signatures and cell based functional assays to delineate differences between various intestinal colon carcinoma cell lines and normal intestinal epithelium. We have compared a panel of intestinal cell lines with patient-derived normal and tumor epithelium and classified them according to traits relating to oncogenic pathway activity, epithelial-mesenchymal transition (EMT) and stemness, migratory properties, proliferative activity, transporter expression profiles and chemosensitivity. For example, SW480 represent an EMT-high, migratory phenotype and scored highest in terms of signatures associated to worse overall survival and higher risk of recurrence based on patient derived databases. On the other hand, differentiated HT29 and T84 cells showed gene expression patterns closest to tumor bulk derived cells. Regarding drug absorption, we confirmed that differentiated Caco-2 cells are the model of choice for active uptake studies in the small intestine. Regarding chemosensitivity we were unable to confirm a recently proposed association of chemo-resistance with EMT traits. However, a novel signature was identified through mining of NCI60 GI50 values that allowed to rank the panel of intestinal cell lines according to their drug responsiveness to commonly used chemotherapeutics. CONCLUSIONS: This study presents a straightforward strategy to exploit publicly available gene expression data to guide the choice of cell-based models. While this approach does not overcome the major limitations of such models, introducing a rank order of selected features may allow selecting model cell lines that are more adapted and pertinent to the addressed biological question.

Broadening the horizon--level 2.5 of the HUPO-PSI format for molecular interactions.

BACKGROUND: Molecular interaction Information is a key resource in modern biomedical research. Publicly available data have previously been provided in a broad array of diverse formats, making access to this very difficult. The publication and wide implementation of the Human Proteome Organisation Proteomics Standards Initiative Molecular Interactions (HUPO PSI-MI) format in 2004 was a major step towards the establishment of a single, unified format by which molecular interactions should be presented, but focused purely on protein-protein interactions. RESULTS: The HUPO-PSI has further developed the PSI-MI XML schema to enable the description of interactions between a wider range of molecular types, for example nucleic acids, chemical entities, and molecular complexes. Extensive details about each supported molecular interaction can now be captured, including the biological role of each molecule within that interaction, detailed description of interacting domains, and the kinetic parameters of the interaction. The format is supported by data management and analysis tools and has been adopted by major interaction data providers. Additionally, a simpler, tab-delimited format MITAB2.5 has been developed for the benefit of users who require only minimal information in an easy to access configuration. CONCLUSION: The PSI-MI XML2.5 and MITAB2.5 formats have been jointly developed by interaction data producers and providers from both the academic and commercial sector, and are already widely implemented and well supported by an active development community. PSI-MI XML2.5 enables the description of highly detailed molecular interaction data and facilitates data exchange between databases and users without loss of information. MITAB2.5 is a simpler format appropriate for fast Perl parsing or loading into Microsoft Excel.

L'edició digital d'articles científics accessibles per a cecs

Es presenta una revisió de la literatura sobre l'edició digital d'articles científics accessibles per a persones cegues.

Estudio de la accesibilidad de la documentación científica en soporte digital

El estudio analiza, a partir de una prueba experimental, los problemas de accesibilidad que actualmente presenta la información científica en formato digital, más concretamente los artículos científicos en soporte digital que actualmente se pueden consultar a través de los portales de acceso a las revistas electrónicas y en los repositorios abiertos ("open access") de literatura científica. El estudio se centra en los aspectos de facilidad de uso del contenido de los documentos, sin entrar en la observación de los distintos sistemas de recuperación.Se han analizado los dos formatos más utilizados para la publicación de artículos científicos en soporte digital: HTML y PDF, estudiando la variabilidad interna que representa la presencia de sumarios o de tablas de datos internas o vinculadas.Esta investigación se ha realizado a partir del trabajo experimental con dos colectivos: sujetos ciegos y sujetos no ciegos. El primer grupo se ha concretado en 30 sujetos ciegos que han colaborado de forma voluntaria y que han sido contactados gracias a la mediación de la Fundación ONCE. El segundo grupo se ha concretado en 30 profesores del Departamento de Biblioteconomía y Documentación de la Universidad de Barcelona.

Some reflections on Geobotany and Vegetation mapping

uivalent Spanish and Catalan terms.

Modelo digital de elevação na caracterização de solos desenvolvidos de basalto e material arenítico

Os levantamentos de solos são na maioria antigos e pouco detalhados, geralmente nos níveis exploratório e de reconhecimento. Isso pode ser explicado pelo fato de que o método tradicional de levantamento de solos é lento e caro, requerendo grande número de observações de campo. Assim, o presente trabalho teve como objetivo caracterizar unidades de mapeamento de solos das regiões de Ibaté e São Carlos, SP, desenvolvidos de materiais basálticos e areníticos em função da declividade e altitudes correspondentes, com base em modelo digital de elevação (MDE). Primeiramente, foi feito um mapa de solos semidetalhado pelo método tradicional. Posteriormente, utilizando-se curvas de nível da região, foi elaborado o MDE, do qual foram extraídos mapas com diferentes classes de declividade e elevação. Por meio da tabulação cruzada, foi determinada a incidência de cada solo nas respectivas classes de declives e altitudes. Cada solo apresentou comportamento diferenciado em relação às classes de declive. Contudo, nas faixas limítrofes de declividade pode ocorrer sobreposição de dois ou mais solos. Na referida região, o Latossolo Amarelo encontra-se predominantemente nas regiões mais altas e de relevo plano; entretanto, solos pouco intemperizados, como os Neossolos Litólicos, aparecem em diferentes faixas de declividade. Conclui-se que o conhecimento da distribuição dos solos no relevo é de grande importância, pois facilita a execução do levantamento de solos. O modelo de elevação apresenta semelhanças com o mapa de solos, podendo auxiliar na sua determinação. As variações de solo, no entanto, são mais complexas, não dispensando as observações de campo.

Identification of novel and cell type enriched cofactors of the transcription activation domain of RelA (p65 NF-kappaB).

RelA (NF-kappaB) is a transcription factor inducible by distinct stimuli in many different cell types. To find new cell type specific cofactors of NF-kappaB dependent transcription, we isolated RelA transcription activation domain binding proteins from the nuclear extracts of three different cell types. Analysis by electrophoresis and liquid chromatography tandem mass spectrometry identified several novel putative molecular partners. Some were strongly enriched in the complex formed from the nuclear extracts of specific cell types.

Mapping cell-matrix stresses during stretch reveals inelastic reorganization of the cytoskeleton.

The mechanical properties of the living cell are intimately related to cell signaling biology through cytoskeletal tension. The tension borne by the cytoskeleton (CSK) is in part generated internally by the actomyosin machinery and externally by stretch. Here we studied how cytoskeletal tension is modified during stretch and the tensional changes undergone by the sites of cell-matrix interaction. To this end we developed a novel technique to map cell-matrix stresses during application of stretch. We found that cell-matrix stresses increased with imposition of stretch but dropped below baseline levels on stretch release. Inhibition of the actomyosin machinery resulted in a larger relative increase in CSK tension with stretch and in a smaller drop in tension after stretch release. Cell-matrix stress maps showed that the loci of cell adhesion initially bearing greater stress also exhibited larger drops in traction forces after stretch removal. Our results suggest that stretch partially disrupts the actin-myosin apparatus and the cytoskeletal structures that support the largest CSK tension. These findings indicate that cells use the mechanical energy injected by stretch to rapidly reorganize their structure and redistribute tension.

Measurement of absolute cell volume, osmotic membrane water permeability, and refractive index of transmembrane water and solute flux by digital holographic microscopy.

ABSTRACT. A dual-wavelength digital holographic microscope to measure absolute volume of living cells is proposed. The optical setup allows us to reconstruct two quantitative phase contrast images at two different wavelengths from a single hologram acquisition. When adding the absorbing dye fast green FCF as a dispersive agent to the extracellular medium, cellular thickness can be univocally determined in the full field of view. In addition to the absolute cell volume, the method can be applied to derive important biophysical parameters of living cells including osmotic membrane water permeability coefficient and the integral intracellular refractive index (RI). Further, the RI of transmembrane flux can be determined giving an indication about the nature of transported solutes. The proposed method is applied to cultured human embryonic kidney cells, Chinese hamster ovary cells, human red blood cells, mouse cortical astrocytes, and neurons.