Related papers: An Introduction to RNA Databases
RNA sequencing (RNA-seq) has been rapidly adopted for the profiling of transcriptomes in many areas of biology, including studies into gene regulation, development and disease. Of particular interest is the discovery of differentially…
Scientific applications produce a huge amount of data, which imposes serious management and analysis challenges. In particular, limitations in current database management systems prevent their adoption in simulation applications, in which…
In the current world due to the huge demand for storage, DNA-based storage solution sounds quite promising because of their longevity, low power consumption, and high capacity. However in real life storing data in the form of DNA is quite…
We introduce an abductive method for a coherent integration of independent data-sources. The idea is to compute a list of data-facts that should be inserted to the amalgamated database or retracted from it in order to restore its…
Research management applications (RMA) are widely used in clinical research environments to collect, transmit, analyze, and store sensitive data. This data is so valuable making RMAs susceptible to security threats. This analysis, analyzes…
Driven by the recent rapid increase in the number of materials databases published (open and commercial), I discuss here some perspectives on the growing need for standardized, interoperable, open databases. The field of computational…
Motivation: Deep learning architectures have recently demonstrated their power in predicting DNA- and RNA-binding specificities. Existing methods fall into three classes: Some are based on Convolutional Neural Networks (CNNs), others use…
The development of novel high-throughput sequencing (HTS) methods for RNA (RNA-Seq) has provided a very powerful mean to study splicing under multiple conditions at unprecedented depth. However, the complexity of the information to be…
Alternative splicing is crucial in gene regulation, with significant implications in clinical settings and biotechnology. This review article compiles bioinformatics RNA-seq tools for investigating differential splicing; offering a detailed…
DNA data storage systems encode digital data into DNA strands, enabling dense and durable storage. Efficient data retrieval depends on coverage depth, a key performance metric. We study the random access coverage depth problem and focus on…
Big data is data that exceeds the processing capacity of traditional databases. The data is too big to be processed by a single machine. New and innovative methods are required to process and store such large volumes of data. This paper…
Background/ Objectives: Resolving the origin of the genetic code is fundamental to understanding how life began its journey out of the chemical world. Since its deciphering some 60 years ago, there is still no general theory of the…
RNA is a fundamental class of biomolecules that mediate a large variety of molecular processes within the cell. Computational algorithms can be of great help in the understanding of RNA structure-function relationship. One of the main…
In biological research machine learning algorithms are part of nearly every analytical process. They are used to identify new insights into biological phenomena, interpret data, provide molecular diagnosis for diseases and develop…
Relational databases (DBs) are ideal tools to manage bulky and structured data archives. In particular for Astronomy they can be used to fulfill all the requirements of a complex project, i.e. the management of: documents, software (s/w)…
Sequence classification is an important data mining task in many real world applications. Over the past few decades, many sequence classification methods have been proposed from different aspects. In particular, the pattern-based method is…
The identification of cyberattacks which target information and communication systems has been a focus of the research community for years. Network intrusion detection is a complex problem which presents a diverse number of challenges. Many…
A standard model for exposing structured provenance metadata of scientific assertions on the Semantic Web would increase interoperability, discoverability, reliability, as well as reproducibility for scientific discourse and evidence-based…
This paper describes a set of experiments with neural network classifiers on the MNIST database of digits. The purpose is to investigate na\"ive implementations of redundant architectures as a first step towards safe and dependable machine…
Recent work on Natural Language Interfaces to Databases (NLIDB) has attracted considerable attention. NLIDB allow users to search databases using natural language instead of SQL-like query languages. While saving the users from having to…