Related papers: On Patterns and Re-Use in Bioinformatics Databases
There are massive amounts of textual data residing in databases, valuable for many machine learning (ML) tasks. Since ML techniques depend on numerical input representations, word embeddings are increasingly utilized to convert symbolic…
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…
The task of generating a database query from a question in natural language suffers from ambiguity and insufficiently precise description of the goal. The problem is amplified when the system needs to generalize to databases unseen at…
Due to its longevity and enormous information density, DNA is an attractive medium for archival data storage. Thanks to rapid technological advances, DNA storage is becoming practically feasible, as demonstrated by a number of experimental…
Owing to its immense storage density and durability, DNA has emerged as a promising storage medium. However, due to technological constraints, data can only be written onto many short DNA molecules called data blocks that are stored in an…
Data mining is the task of discovering interesting patterns from large amounts of data. There are many data mining tasks, such as classification, clustering, association rule mining, and sequential pattern mining. Sequential pattern mining…
The metadata about scientific experiments are crucial for finding, reproducing, and reusing the data that the metadata describe. We present a study of the quality of the metadata stored in BioSample--a repository of metadata about samples…
In this paper, we study how often unique decoding from $t$ insertions or $t$ deletions occurs for error correcting codes. Insertions and deletions frequently occur in synchronization problems and DNA, a medium which is beginning to be used…
Recursive processing in sentence comprehension is considered a hallmark of human linguistic abilities. However, its underlying neural mechanisms remain largely unknown. We studied whether a modern artificial neural network trained with…
Biological databases can be analysed as a complex network which may reveal some its underlying biological mechanisms. Frequently, such databases are identified as scale-free networks or as hierarchical networks depending on connectivity…
There is a wide range of available biological databases developed by bioinformatics experts, employing different methods to extract biological data. In this paper, we investigate and evaluate the performance of some of these methods in…
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…
In the last two decades, network science has blossomed and influenced various fields, such as statistical physics, computer science, biology and sociology, from the perspective of the heterogeneous interaction patterns of components…
Distributed storage systems and databases are widely used by various types of applications. Transactional access to these storage systems is an important abstraction allowing application programmers to consider blocks of actions (i.e.,…
In recent studies [1][13][12] Recurrent Neural Networks were used for generative processes and their surprising performance can be explained by their ability to create good predictions. In addition, data compression is also based on…
A circular program contains a data structure whose definition is self-referential or recursive. The use of such a definition allows efficient functional programs to be written and can avoid repeated evaluations and the creation of…
Increasingly more data is becoming available on the Web, estimates speaking of 1 billion documents in 2002. Most of the documents are Web pages whose data is considered to be in XML format, expecting it to eventually replace HTML. A common…
Distributed databases often suffer unequal distribution of data among storage nodes, which is known as `data skew'. Data skew arises from a number of causes such as removal of existing storage nodes and addition of new empty nodes to the…
Passwords should be easy to remember, yet expiration policies mandate their frequent change. Caught in the crossfire between these conflicting requirements, users often adopt creative methods to perform slight variations over time. While…
In this paper we will describe a new approach on the well-known suffix-array algorithm using Big Table Data Technology. We will demonstrate how it is possible to refactor a well-known algorithm coupled by taking advantage of an…