Active Projects

 

AquaDiva INFRA 1 – semantic technologies for scientific data management and text mining

 

The Collaborative Research Centre AquaDiva (CRC 1076), funded by the German Research Foundation (DFG), focuses on the important roles of water (Aqua) and biodiversity (Diva) for shaping the structure, properties and functions of the subsurface. This project aims to answer fundamental questions about the Earth’s Critical Zone (CZ) that begins below the highest density of plant roots (~0.3 meters) and extends down into the first aquifers (~100 meters): What biota live there? How do they interact with and reflect their environment? and How do they reflect surface properties? In cooperation with the research group of Prof. Dr. Udo Hahn (http://www.julielab.de/)…

 

BExIS++

 

The Heinz-Nixdorf Endowed Chair for Practical Computer Science at the Friedrich-Schiller-University (FSU) of Jena, Germany is working with the Institute of Ecology (FSU), the Institute for Geography (FSU), the University Data Center (FSU) and the Max Planck Institute for Biogeochemistry for the further development of the established Biodiversity-Exploratories Information System (BExIS). Furthermore, the project will focus on strategic work such as concepts and method development to foster long-term data preservation in biodiversity research at the Friedrich-Schiller-University. Ideally, the further development of the existing BExIS software will serve three purposes: Technical Goals The core of the BExIS software will be revised…

 

BioDialog: Intercultural Dialog through Biodiversity Informatics

 

Ein Kooperationsprojekt der Universität Jena mit der Assiut University und der Ain Shams University, Ägypten und der Sfax University, Tunesien This project serves to prepare a more ambitious three-year project aiming to bring together two vital topics: data management on the one hand and biodiversity research on the other hand. The BioDialog project has the following main objectives: It aims firstly, to establish a scientific exchange, founded on regional expertise which allows understanding biodiversity and biodiversity informatics practices in their specific local context. Biodiversity and biodiversity informatics are common phenomena. However, they have different effects in different contexts which cannot…

 

Biodiversity Exploratories - Core Project 4: Data Management

 

The Central Data Management Project of the Biodiversity Exploratories (BE) Research provides the platform for data storage and information exchange between the different working groups. In this regard, we support BE researchers in their data management activities which includes data collection planning, description, storage and archiving, quality management, discovery, integration, analysis, visualization, publishing and sharing. Such support includes the management of data repository infrastructure, development of tools to support the above listed activities,  help desk, etc. Most of the services  we provide to the researchers are delivered through its online platform called BExIS (Biodiversity Exploratory Information System). BExIS is the data repository and information exchange platform…

 

GFBio WP1 - Portal

 

GFBio (The German Federation for Biological Data, http://www.gfbio.org) supports environmental biology research with enhanced data services. It currently provides a portal search across several archives and collections with access to about 400.000 biodiversity metadata files. The majority of this data is linked with primary research data which in a first prototype for visualization can be displayed on interactive configurable maps. Our group is responsible for the portal set up, maintenance and the integration of tools and services developed by GFBio partners. The well established portal technology Liferay and state-of-the-art portlet standards such as JSR268 and Widgets/Gadgets support the vision to provide one single point of entry for different kinds of tools for data management and data analysis. Currently, we are working on archiving functions, user management enhancement, advanced search features and the integration of personalization and semantic web techniques.

 

iDiv- Biodiversity Informatics Unit (BDU)

 

The German Centre for Integrative Biodiversity Research (iDiv) funded by the German Research Foundation (DGF), is a hub for international biodiversity science whose central mission is to promote theory-driven synthesis and data-driven theory. The concept of iDiv encompasses detection and quantification of biodiversity, understanding its existence and emergence, exploring it’s consequences for ecosystem functions and services, and developing new strategies to safeguard biodiversity. No single institution – not even a whole generation of scientists – possesses the intellectual capacity to exploit the potential of the data it generates and assembles. Without efficient data storage and sharing within iDiv, between iDiv and the outside,…

 

LakeBase: Database Infrastructure for Long-Term Data of German Lakes

 

In this collaborative project coordinated by the IGB, the Leibniz-institute of Freshwater Ecology and Inland Fisheries, we plan to develop a database infrastructure for long-term data of lakes. We aim to provide interoperability of LakeBase with international databases, like LTER North Temperate Lake Database and other collections of ecological time series. The challenge will be to achieve interoperability without limiting the data owners' autonomy. The Heinz-Nixdorf-Chair for Distributed Information Systems at the Friedrich Schiller University Jena is responsible for the development of an ontology-based common vocabulary and meta data standards to provide semantic search capabilities and meta data annotation assistance.

 

Mercury

 

Mercury is a joint project between the Institute of Computer Science at FSU Jena and the IBM Deutschland Research & Development GmbH in Boeblingen. The main objective of this project is to develop a system that combines the user centric device and service processing. Since the integrated system of utilizing a heterogeneous infrastructure of simple sensors and actuators is complicated for average users, we aim to overcome the complexity of this system integration.

 

Project Z2 of CRC ReceptorLight: Integrative Data Management and Processing

 

Project Z2 of CRC ReceptorLight is jointly carried out by the Jena University Hospital and Friedrich Schiller University Jena within the framework of the Collaborative Research Centre (CRC) "High-end light microscopy elucidates membrane receptor function (Receptor Light)" established in 2015. CRC ReceptorLight is funded by the German Research Foundation (DFG) and consists of around 20 research projects from various institutions located in Jena and Würzburg. It will apply and develop light microscopy techniques with highest resolutions in space and time. The volume of the resulting datasets will be large, expected to be in multi-petabyte data. The overall goal of project…

 

QUIS: Query Heterogeneous Data In-Situ

 

Data of interest are often found in a variety of data sources, many of which are not relational databases, but have their own data organization and query capabilities. To answer questions of interest, one has to run queries across data from these heterogeneous sources. The traditional approach is to perform multiple individual data transformation tasks, one per data source, to import the data into a common repository where they can be queried and analyzed. Drawbacks of this approach include the manual effort and the cost of transforming and importing potentially large data sets, and the lost opportunity to exploit any query facilities provided by the data sources. QUIS (QUery In-Situ) proposes an approach for querying the data "in-situ" to the greatest extent possible, by taking the user query and transforming appropriate portions of it into corresponding query expressions on individual data sources. Realizing this approach requires the development of a unified query model. This model can extract sub-queries matching heterogeneous capabilities of individual sources, perform heterogeneous joins on intermediate results as necessary, and deal with barriers such as incompatible type systems en route. Early experiments have shown that QUIS almost eliminates the time to prepare the data while paying only a small cost in query execution time compared to a fully integrated, indexed, and loaded relational database.

 

Semantic User Modeling for the Recommendation of Scientific Data

 

Collaboration with the  Semantic Software Lab, Concordia University, Montréal, Canada Researchers in the medical and life sciences are faced with an increasing abundance of data in scientific repositories. Thus, handling and filtering of data becomes a more and more time-consuming and challenging task. Semantic recommender systems are a new rising research area using underlying knowledge bases, e.g., ontologies in the recommendation process. That allows to present relevant results that go beyond a user’s stored preferences and to include other semantic related terms that are not explicitly mentioned in the user profile. One obstacle for semantic recommendation is the poor description of personalization settings in state-of-the-art user model ontologies. Apart from storing general user interests it is not possible to specify further needs. We aim at the establishment of a formal semantic user model for scientific research objects and its integration and usage in semantic recommender systems.

Completed Projects

 

Adaptive Semantic Assistants in Online Applications

 

The rapid growth rate of available textual documents underlines a prominent need for novel approaches to overcome the information overload that knowledge workers are faced with. In such situations, new information filtering and analysis techniques are required to provide end users with information related to their context and task at hand. In cooperation with the Semantic Software Lab at Concordia University in Montréal, Canada (http://www.semanticsoftware.info), we have been developing a new generation of portals that automatically adapt to their users context using novel techniques from the Natural Language Processing (NLP) and Semantic Computing domains. The vision is to extend an…

 

CoSRe

 

The CoSRe project of the Friedrich-Schiller-University of Jena investigates how computers can support the entire scientific life cycle. Today in each science computers are needed, not only for the storage of experimental data, but also for generating simulation data and futhermore for the analysis of different kinds of data. Over the internet scientists can work together and can share their results. This collaboration leads to new knowledge and new challenges. To deal with this "flood of information" the complete scientific cycle has to be supported by computers. For more information about CoSRe - please visit the project website http://cosre.c3e.de/

 

DIANE - Services in ad hoc Networks

 

In the DIANE project, we aim at developing and evaluating concepts that will allow integrated, efficient and effective usage of services offered in open and dynamic environments like ad-hoc networks. To achieve these goals, we propose mechanisms to address a number of questions: How can service search be facilitated in decentralized, dynamic environments? How can services be described, automatically found, and selected? How can services be efficiently executed? How can fairness be ensured in open environments? We propose mechanisms to describe, find and select services as well as methods including overlays and replication mechanisms to efficiently process such queries. Additionally,…

 

Minerva Portals

 

Minerva Portals is a joint effort of the Institute of Computer Science at the University of Jena and the IBM Deutschland Entwicklung GmbH in Boeblingen. The overall goal of this project is provide an architectural solution for the next generation Web portals.

 

MOPS

 

The aim of the  "MOPS"  project is the development of solutions for the transfer of formerly static business processes into the world of mobile data devices. The project under the title "Adaptive Planung und sichere Ausführung mobiler Prozesse in dynamischen Szenarien (MOPS)"  (Adaptive Planning and Secure Execution of Mobile Processes in Dynamic Scenarios) is funded by the “Thüringer Aufbaubank” and began on the 06.08.2009. The whole project runs 30 months and has a volume of 2.2 million euros. For this purpose financial resources from European Regional Development Fund (ERDF) are used. The project consortium includes TU Ilmenau, FH Erfurt, Navimatix,…

 

OPOSSum

 

OPOSSum (Online POrtal for Semantic Services ) is a portal dedicated to collaboratively build a public test collection of semantic web services. Despite significant research efforts in the field of semantic web services, real tools and applications using them are still rare. One of the main obstacles for improvements in this direction is the lack of sufficiently large and high-quality collections to test and evaluate tools and algorithms for semantic web services. Such collections cannot be built by any single group but only in a collaborative way by the community as a whole. The purpose of OPOSSum is to equip…

 

Pluto / JSR 286

 

Apache Pluto Project - Java Portlet Specifikation 2 in cooperation with the IBM research labs in Böblingen, Stuttgart

 

Power to the People: Business Users Drive Application Development for Portal Websites

 

Portals are the next generation application systems, offering personalized, seamless integration of diverse applications. The vision is that in the future, business users without programming expertise will build their own portal based environments. The Heinz-Nixdorf Endowed Chair at the University of Jena plans to extend its current research activities in these directions. This could be well done on the basis of former work and the group's experience in areas like portal technology (gained within the context of JSR 286) and (semantic) web services.

 

SpeedUp

 

For the security forces and rescue workers engaged in a major operation, no integrative information and communication tool is available up until now. Today such coordination is carried out by personal consultation at the site, via official radio channels or by means of paper-based documentation. In the case of scenarios such as mass casualty incidents, however, personal consultations or the procurement and dispatch of documents are virtually impossible to manage. Processes are inefficient and precious time is lost as a result: factors that, in the worst case, raise the number of victims. In this BMBF-funded project, this problem is tackled…