Related papers: An Introduction to RNA Databases

The importance of security in database research has greatly increased over the years as most of critical functionality of the business and military enterprises became digitized. Database is an integral part of any information system and…

Graph processing has become an important part of multiple areas of computer science, such as machine learning, computational sciences, medical applications, social network analysis, and many others. Numerous graphs such as web or social…

Data Security is a major issue in any web-based application. There have been approaches to handle intruders in any system, however, these approaches are not fully trustable; evidently data is not totally protected. Real world databases have…

Reference population databases are an essential tool in variant and gene interpretation. Their use guides the identification of pathogenic variants amidst the sea of benign variation present in every human genome, and supports the discovery…

Modern knowledge base systems frequently need to combine a collection of databases in different formats: e.g., relational databases, XML databases, rule bases, ontologies, etc. In the deductive database system DDBASE, we can manage these…

RNA-Seq is rapidly becoming the standard technology for transcriptome analysis. Fundamental to many of the applications of RNA-Seq is the quantification problem, which is the accurate measurement of relative transcript abundances from the…

Targeting RNA with small molecules offers significant therapeutic potential. Machine learning could substantially accelerate preclinical drug discovery, from hit identification to lead optimization. Yet a fundamental limitation emerges:…

This contribution focuses on the fascinating RNA molecule, its sequence-dependent folding driven by base-pairing interactions, the interplay between these interactions and natural evolution, and its multiple regulatory roles. The four of us…

The intra- and inter-species genetic diversity of bacteria and the absence of 'reference', or the most representative, sequences of individual species present a significant challenge for sequence-based identification. The aims of this study…

Understanding the base pairing of an RNA sequence provides insight into its molecular structure.By mining suboptimal sampling data, RNAprofiling 1.0 identifies the dominant helices in low-energy secondary structures as features, organizes…

RNA can be used as a high-density medium for data storage and transmission; however, an important RNA process -- replication -- is noisy. This paper presents an error analysis for RNA as a data transmission medium, analyzing how deletion…

Single-cell RNA-Sequencing (scRNA-Seq) has undergone major technological advances in recent years, enabling the conception of various organism-level cell atlassing projects. With increasing numbers of datasets being deposited in public…

The discovery of nucleic acids and the structure of DNA have brought considerable advances in the understanding of life. The development of next-generation sequencing technologies has led to a large-scale generation of data, for which…

Database system architectures are undergoing revolutionary changes. Algorithms and data are being unified by integrating programming languages with the database system. This gives an extensible object-relational system where non-procedural…

Buffer management remains a critical component of database and operating system performance, serving as the primary mechanism for bridging the persistent latency gap between CPU processing speeds and storage access times. This paper…

Gene set analysis, a popular approach for analyzing high-throughput gene expression data, aims to identify sets of related genes that show significantly enriched or depleted expression patterns between different conditions. In the last…

Relational databases play a central role in many information systems. Their schema contains structural (e.g. tables and columns) and behavioral (e.g. stored procedures or views) entity descriptions. Then, just like for ``normal'' software,…

Vector database management systems have emerged as an important component in modern data management, driven by the growing importance for the need to computationally describe rich data such as texts, images and video in various domains such…

Functional or non-coding RNAs are attracting more attention as they are now potentially considered valuable resources in the development of new drugs intended to cure several human diseases. The identification of drugs targeting the…

We discuss long-term preservation of and access to relational databases. The focus is on national archives and science data archives which have to ingest and integrate data from a broad spectrum of vendor-specific relational database…