Related papers: BioInfoBase : A Bioinformatics Resourceome
With the advancement of high-throughput biotechnologies, we increasingly accumulate biomedical data about diseases, especially cancer. There is a need for computational models and methods to sift through, integrate, and extract new…
Large systems biology projects can encompass several workgroups often located in different countries. An overview about existing data standards in systems biology and the management, storage, exchange and integration of the generated data…
The vision of IASIS project is to turn the wave of big biomedical data heading our way into actionable knowledge for decision makers. This is achieved by integrating data from disparate sources, including genomics, electronic health records…
Contemporary bioinformatics has seen in profound new visibility into the composition, structure, and history of the natural world around us. Arguably, the central pillar of bioinformatics is phylogenetics -- the study of hereditary…
The rapid growth of scientific software has created practical barriers for bioinformatics research. Although powerful statistical, artificial intelligence (AI)-based methods are now widely available, their effective use is often hindered by…
Since the era of big data, the Internet has been flooded with all kinds of information. Browsing information through the Internet has become an integral part of people's daily life. Unlike the news data and social data in the Internet, the…
Many ecological questions center on complex phenomena, such as species interactions, behaviors, phenology, and responses to disturbance, that are inherently difficult to observe and sparsely documented. Community science platforms such as…
Recent advances in the healthcare industry have led to an abundance of unstructured data, making it challenging to perform tasks such as efficient and accurate information retrieval at scale. Our work offers an all-in-one scalable solution…
Open source bioinformatics tools running under MS Windows are rare to find, and those running under Windows HPC cluster are almost non-existing. This is despite the fact that the Windows is the most popular operating system used among life…
The analysis and interpretation of relationships between biological molecules is done with the help of networks. Networks are used ubiquitously throughout biology to represent the relationships between genes and gene products. Network…
MOTIVATION: The biological literature is a major repository of knowledge. Many biological databases draw much of their content from a careful curation of this literature. However, as the volume of literature increases, the burden of…
Biotoxins, mainly produced by venomous animals, plants and microorganisms, exhibit high physiological activity and unique effects such as lowering blood pressure and analgesia. A number of venom-derived drugs are already available on the…
Delivering effective data analytics is of crucial importance to the interpretation of the multitude of biological datasets currently generated by an ever increasing number of high throughput techniques. Logic programming has much to offer…
Legacy scientific workflows, and the services within them, often present scarce and unstructured (i.e. textual) descriptions. This makes it difficult to find, share and reuse them, thus dramatically reducing their value to the community.…
Many fields of science rely on relational database management systems to analyze, publish and share data. Since RDBMS are originally designed for, and their development directions are primarily driven by, business use cases they often lack…
Tools to explore scientific literature are essential for scientists, especially in biomedicine, where about a million new papers are published every year. Many such tools provide users the ability to search for specific entities (e.g.…
The Industrial Internet market is targeted to grow by trillions of US dollars by the year 2030, driven by adoption, deployment and integration of billions of intelligent devices and their associated data. This digital expansion faces a…
Software defect detection is a critical task in software engineering. However, no prior studies have specifically addressed defect detection in bioinformatics software. Given that the performance of defect detection tasks is primarily…
Data integration between web sources and relational data is a key challenge faced by data scientists and spreadsheet users. There are two main challenges in programmatically joining web data with relational data. First, most websites do not…
Understanding the connections between unstructured text and semi-structured table is an important yet neglected problem in natural language processing. In this work, we focus on content-based table retrieval. Given a query, the task is to…