Related papers: Data navigation on the ENCODE portal
Background: Biomedical research projects deal with data management requirements from multiple sources like funding agencies' guidelines, publisher policies, discipline best practices, and their own users' needs. We describe functional and…
Analysis of genomics data is central to nearly all areas of modern biology. Despite significant progress in artificial intelligence (AI) and computational methods, these technologies require significant human oversight to generate novel and…
The human genome is incredibly information-rich, consisting of approximately 25,000 protein-coding genes spread out over 3.2 billion nucleotide base pairs contained within 24 unique chromosomes. The genome is important in maintaining…
Entity Linking is the task of matching a mention to an entity in a given knowledge base (KB). It contributes to annotating a massive amount of documents existing on the Web to harness new facts about their matched entities. However,…
Facial expression analysis is central to understanding human behavior, yet existing coding systems such as the Facial Action Coding System (FACS) are constrained by limited coverage and costly manual annotation. In this work, we introduce…
With high-throughput biotechnologies generating unprecedented quantities of data, researchers are faced with the challenge of locating and comparing an exponentially growing number of programs and websites dedicated to computational…
The interactions between DNA, RNA, and proteins are fundamental to biological processes, as illustrated by the central dogma of molecular biology. Although modern biological pre-trained models have achieved great success in analyzing these…
Composite DNA is a recent novel method to increase the information capacity of DNA-based data storage above the theoretical limit of 2 bits/symbol. In this method, every composite symbol does not store a single DNA nucleotide but a mixture…
At the core of high throughput DNA sequencing platforms lies a bio-physical surface process that results in a random geometry of clusters of homogenous short DNA fragments typically hundreds of base pairs long - bridge amplification. The…
Enzyme Commission (EC) numbers, which associate a protein sequence with the biochemical reactions it catalyzes, are essential for the accurate understanding of enzyme functions and cellular metabolism. Many ab-initio computational…
Advances in genome sequencing technologies generate massive amounts of sequence data that are increasingly analyzed and shared through public repositories. On-demand infrastructure services on cloud computing platforms enable the processing…
A software program which aims to provide an exploration capability over the Search Space of potential drug molecules. The program explores the search space by generating random molecules, determining their fitness and then breeding a new…
Electroencephalography (EEG) decoding is a challenging task due to the limited availability of labelled data. While transfer learning is a promising technique to address this challenge, it assumes that transferable data domains and task are…
Neuro-encoded expression programming(NEEP) that aims to offer a novel continuous representation of combinatorial encoding for genetic programming methods is proposed in this paper. Genetic programming with linear representation uses…
In real-world data science and enterprise decision-making, critical information is often fragmented across directly queryable structured sources (e.g., SQL, CSV) and "zombie data" locked in unstructured visual documents (e.g., scanned…
Peoples' activities and opinions recorded as digital traces online, especially on social media and other web-based platforms, offer increasingly informative pictures of the public. They promise to allow inferences about populations beyond…
Motivation: The gene content regulates the biology of an organism. It varies between species and between individuals of the same species. Although tools have been developed to identify gene content changes in bacterial genomes, none is…
The human brain represents an object by small elements and distinguishes two objects based on the difference in elements. Discovering the distinctive elements of high-dimensional datasets is therefore critical in numerous perception-driven…
This paper introduces a new concept. We intend to give life to a software agent. A software agent is a computer program that acts on a user's behalf. We put a DNA inside the agent. DNA is a simple text, a whole roadmap of a network of…
Counting people or objects with significantly varying scales and densities has attracted much interest from the research community and yet it remains an open problem. In this paper, we propose a simple but an efficient and effective…