ASDB: A comprehensive omics database for Anopheles sinensis.

Anopheles sinensis is a key disease vector for human malaria and parasitic diseases such as malayan filariasis, and it is considered to be one of the most important malaria vectors in China and Southeast Asia. As high-throughput sequencing and assembly technology are widely used in An. sinensis, a lot of omics data have been generated, and abundant genome, mRNA transcriptome, miRNA transcriptome and resequencing results have been accumulated. In addition, lots of valuable morphological images and publications have been produced with the in-depth studies on An. sinensis. However, the increased quantity, variety, and structure complexity of the omics data create inconveniences for researchers to use and manage this information. We have built an An. sinensis omics database (ASDB, http://asdb.jungleran.com/) - a comprehensive and integrated database to promote scientific research on An. sinensis. Docker was used to deploy a development environment and Drupal to build ASDB. ASDB provides a Blast tool to do sequence alignment of genome sequence, gene sequence and protein sequence of An. sinensis. It also offers JBrowse (a next-generation genome visualization and analysis web platform) to facilitate researchers visualize the gene structure, non-coding RNA (include miRNA, snRNA, tRNA and so on) structure and genomic variation sites as desired. ASDB has integrated various latest omics data of An. Sinensis, including de novo genome and its annotation data, genome variation data (such as SNP and InDel), transcriptome and its expression value, miRNA expression value and miRNA-mRNA interaction, metagenomes. The database has also included the morphological images of different developmental stages and tissues, and important literatures associated with An. sinensis. ASDB provides a user-friendly search and displays pages. The integration of these resources will contribute to the study of basic biology and functional genome of An. sinensis.

Menoci: lightweight extensible web portal enhancing data management for biomedical research projects.

BACKGROUND: Biomedical research projects deal with data management requirements from multiple sources like funding agencies' guidelines, publisher policies, discipline best practices, and their own users' needs. We describe functional and quality requirements based on many years of experience implementing data management for the CRC 1002 and CRC 1190. A fully equipped data management software should improve documentation of experiments and materials, enable data storage and sharing according to the FAIR Guiding Principles while maximizing usability, information security, as well as software sustainability and reusability. RESULTS: We introduce the modular web portal software menoci for data collection, experiment documentation, data publication, sharing, and preservation in biomedical research projects. Menoci modules are based on the Drupal content management system which enables lightweight deployment and setup, and creates the possibility to combine research data management with a customisable project home page or collaboration platform. CONCLUSIONS: Management of research data and digital research artefacts is transforming from individual researcher or groups best practices towards project- or organisation-wide service infrastructures. To enable and support this structural transformation process, a vital ecosystem of open source software tools is needed. Menoci is a contribution to this ecosystem of research data management tools that is specifically designed to support biomedical research projects.

"If the Library Genie Granted You Three Wishes, What Would They Be?": Results and Lessons Learned From an Annual User Feedback Campaign.

The Health Sciences Library at the University of Colorado Anschutz Medical Campus implemented a user feedback campaign that successfully provided input about user needs. The library created an engaging marketing theme and employed a simple form to successfully solicit feedback from users. The program has been easy to replicate in subsequent years, and other health sciences libraries have been able to recreate the process at their institutions.

Construction and implementation of team collaboration platform and institutional repository platform / 中华医学图书情报杂志

After the institutional repository system was constructed using the open-source software Drupal, the team collaboration platform and institutional repository platform were integrated into a Web 2.0-based network plat-form on which the users can create their project groups and other users can be formed as dynamic virtual groups by joining the team group in which they work in collaboration.The team members submit the files to the project group in a sustained manner for its share and use during the ongoing project, and the files become the intellectual proper-ties of project group.The whole project group was sealed as a part of institutional repository after the project was completed, and the users can see how the project is completed at any time, thus helping the collection, store and use of intellectual properties.

Construction of subject service platform for nursing staff in hospitals based on Drupal / 中华医学图书情报杂志

The subject service platform was constructed for nursing science using Drupal according to the low edu-cation level, high work load, much fragmentary time, and low information literacy of nursing staff.Web 2.0 infor-mation service was provided for nursing staff,such as literature pushing, cloud tag revealing and personal customiza-tion by integrating the library-holding resources ( including paper literature resources , electronic literature re-sources and literature resources on networks ) .The literature literacy level and scientific research ability of nursing staff were improved by making the full use of their fragmentary time.The new service mode in hospital libraries was studied in Web 2.0 environment .

Construction of content management system for mobile library using Drupal / 中华医学图书情报杂志

Construction of content management system for mobile library using Drupal can meet the requirements of mobile library which can thus provide better service for readers because of its high integrality, interconnection , intelligibility , convenience , maintainability , and expandability .That is why the whole construction process of content management system for mobile library using Drupal is described in this paper .

Análisis de Sistema de Gestión de Contenidos para una Red Colaborativa en la Facultad de Ciencias Médicas Dr Enrique Cabrera / Analysis of Content Management System for Collaborative Network at the Faculty of Medical Sciences Dr. Enrique Cabrera

Introducción: se ha podido corroborar mediante estudios realizados con anterioridad la carencia de un sistema de gestión de información para la creación de una Red Colaborativa, lo que ha propiciado orientar las Tecnologías de la Información y Comunicación en función de estas. En este sentido, la Facultad de Ciencias Médicas Dr. Enrique Cabrera procura mediante el manejo de los proyectos de investigación presentados en la organización por investigadores y profesores crear un sitio web, para lo cual se apoya en un Sistema de Gestión de Contenidos que contribuyan a crear una estructura de soporte para la creación y administración de contenidos de manera digital integrando tanto los recursos intelectuales como los tecnológicos. Objetivo: determinar el Sistema de Gestión de Contenidos que más se adecue a la ejecución una Red Colaborativa para la Facultad de Ciencias Médicas Dr.Enrique Cabrera. Material y Métodos: se realizó una revisión bibliográfica y documental de textos relacionados con el tema, lo que permitió obtener la información deseada. Se proponen varios gestores y se considera para su elección: el costo, la licencia, seguridad, lenguaje de programación, facilidad de uso, entre otros. Se analizó y seleccionó la metodología Extreme Programming XP.Desarrollo: se hace una caracterización de los Sistema de Gestión de Contenidos: DRUPAL, JOOLAM, PLONE, TYP3 y WORDPRESS. Conclusiones: se determina para este estudio el Sistema de Gestión de Contenidos modular multipropósito Drupal por ser la más conveniente, asmismo se analizó y optó por la metodología Extreme Programming XP por las ventajas que esta tributa con el asunto tratado(AU)

Introduction: it has been corroborated by studies conducted before the lack of an information management system for the creation of a Collaborative Network; this has led to direct the Information Technology and Communication in terms of these. In this regard, the Faculty of Medical Sciences Enrique Cabrera seeks through the management of research projects submitted in the organization of researchers and teachers to create a Web site for which it is supported by a Content Management System to help create a support structure for creating and managing content digitally integrating both technological and intellectual resources. Objective: to determine the Content Management System that best suits running a Collaborative Network for the Faculty of Medical Sciences Enrique Cabrera. Material and Methods: a literature review and documentary texts on the topic was performed, which allowed to obtain the desired information. Several operators are proposed and considered for selection: cost, licensing, security, programming language, ease of use, among others. XP Extreme Programming methodology was analyzed and selected. Development: a characterization of the Content Management System is made: DRUPAL, JOOLAM, PLONE, TYP3 and WORDPRESS. Conclusions: determined for this study to Management System Contents modular multipurpose Drupal as the most convenient also analyzed and chose XP Extreme Programming methodology for the benefits it pays tax treaty with the matter(AU)

Pain Research Forum: application of scientific social media frameworks in neuroscience.

BACKGROUND: Social media has the potential to accelerate the pace of biomedical research through online collaboration, discussions, and faster sharing of information. Focused web-based scientific social collaboratories such as the Alzheimer Research Forum have been successful in engaging scientists in open discussions of the latest research and identifying gaps in knowledge. However, until recently, tools to rapidly create such communities and provide high-bandwidth information exchange between collaboratories in related fields did not exist. METHODS: We have addressed this need by constructing a reusable framework to build online biomedical communities, based on Drupal, an open-source content management system. The framework incorporates elements of Semantic Web technology combined with social media. Here we present, as an exemplar of a web community built on our framework, the Pain Research Forum (PRF) (http://painresearchforum.org). PRF is a community of chronic pain researchers, established with the goal of fostering collaboration and communication among pain researchers. RESULTS: Launched in 2011, PRF has over 1300 registered members with permission to submit content. It currently hosts over 150 topical news articles on research; more than 30 active or archived forum discussions and journal club features; a webinar series; an editor-curated weekly updated listing of relevant papers; and several other resources for the pain research community. All content is licensed for reuse under a Creative Commons license; the software is freely available. The framework was reused to develop other sites, notably the Multiple Sclerosis Discovery Forum (http://msdiscovery.org) and StemBook (http://stembook.org). DISCUSSION: Web-based collaboratories are a crucial integrative tool supporting rapid information transmission and translation in several important research areas. In this article, we discuss the success factors, lessons learned, and ongoing challenges in using PRF as a driving force to develop tools for online collaboration in neuroscience. We also indicate ways these tools can be applied to other areas and uses.

Implementation of information pushing function in mobile library using Drupal+PhoneGap / 中华医学图书情报杂志

Drupal, a powerful content management system and content management framework, can provide a visiting interface for the mobile terminal equipments , especially the interface for the mobile APP program .How to imple-ment the information pushing function in mobile library using Drupal+PhoneGap was described by constructing the APP program model for information pushing and browsing in mobile library as an example.

Application of Drupal in Chinese Medicine Information Fusion / 世界科学技术-中医药现代化

This paper was aimed to discuss the application of content management system (CMS) Drupal in Chinese medicine information fusion. The modular functionality, scalability and strong management capabilities of Drupal can effectively manage and reasonably present information resources of Chinese medicine, which extended the application of Chinese medicine information fusion. Regarding CMS Drupal as the carrier of Chinese medicine information fusion, the Chinese medicine information fusion method can be used in the collection, organization and demonstration of Chinese medicine information in the platform. As one of network tools for Chinese medicine information fusion, Dru-pal will play its powerful function in content management and information publishing with the virtual technology. It will also enrich Chinese medicine information fusion, and promote the spread of Chinese medicine knowledge.

EXIF Custom: Automatic image metadata extraction for Scratchpads and Drupal.

Many institutions and individuals use embedded metadata to aid in the management of their image collections. Many deskop image management solutions such as Adobe Bridge and online tools such as Flickr also make use of embedded metadata to describe, categorise and license images. Until now Scratchpads (a data management system and virtual research environment for biodiversity) have not made use of these metadata, and users have had to manually re-enter this information if they have wanted to display it on their Scratchpad site. The Drupal described here allows users to map metadata embedded in their images to the associated field in the Scratchpads image form using one or more customised mappings. The module works seamlessly with the bulk image uploader used on Scratchpads and it is therefore possible to upload hundreds of images easily with automatic metadata (EXIF, XMP and IPTC) extraction and mapping.