Related papers: Data navigation on the ENCODE portal
Motivation: The pan-genome can be stored as elastic-degenerate (ED) string, a recently introduced compact representation of multiple overlapping sequences. However, a search over the ED string does not indicate which individuals (if any)…
The World Wide Web is not only one of the most important platforms of communication and information at present, but also an area of growing interest for scientific research. This motivates a lot of work and projects that require large…
The paper presents a solution for endcoding/decoding DNA information in 2D barcodes. First part focuses on the existing techniques and symbologies in 2D barcodes field. The 2D barcode PDF417 is presented as starting point. The adaptations…
An end-to-end platform for chemical science research has been developed that integrates data from computational and experimental approaches through a modern web-based interface. The platform offers a highly interactive visualization and…
The ongoing explosion of genome sequence data is transforming how we reconstruct and understand the histories of biological systems. Across biological scales, from individual cells to populations and species, trees-based models provide a…
The electrocardiogram or ECG has been in use for over 100 years and remains the most widely performed diagnostic test to characterize cardiac structure and electrical activity. We hypothesized that parallel advances in computing power,…
Software quality research increasingly relies on large-scale datasets that measure both the product and process aspects of software systems. However, existing resources often focus on limited dimensions, such as code smells, technical debt,…
Recently, a number of approaches and techniques have been introduced for reporting software statistics with strong privacy guarantees. These range from abstract algorithms to comprehensive systems with varying assumptions and built upon…
Electrocardiography plays an essential role in diagnosing and screening cardiovascular diseases in daily healthcare. Deep neural networks have shown the potentials to improve the accuracies of arrhythmia detection based on…
Realistic human-centric rendering plays a key role in both computer vision and computer graphics. Rapid progress has been made in the algorithm aspect over the years, yet existing human-centric rendering datasets and benchmarks are rather…
Gaining a genomic perspective on phylogeny requires the collection of data from many putatively independent loci collected across the genome. Among insects, an increasingly common approach to collecting this class of data involves…
Popular online enrichment analysis tools from the field of molecular systems biology provide users with the ability to submit their experimental results as gene sets for individual analysis. Such queries are kept private, and have never…
Functional connectivity of cognitive tasks allows researchers to analyse the interaction mapping occurring between different regions of the brain using electroencephalography (EEG) signals. Standard practice in functional connectivity…
The rules that specify how the information contained in DNA codes amino acids, is called "the genetic code". Using a simplified version of the Penna nodel, we are using computer simulations to investigate the importance of the genetic code…
Web automation holds the potential to revolutionize how users interact with the digital world, offering unparalleled assistance and simplifying tasks via sophisticated computational methods. Central to this evolution is the web element…
Decoding approaches are widely used in neuroscience and machine learning to compare stimulus representations across neural systems, such as different brain regions, organisms, and deep learning models. Popular methods include decoding…
Background: Conventional electrocardiogram (ECG) analysis faces a persistent dichotomy: expert-driven features ensure interpretability but lack sensitivity to latent patterns, while deep learning offers high accuracy but functions as a…
Brain-computer interface (BCI) technology enables direct communication between the brain and external devices through electroencephalography (EEG) signals. However, existing decoding models often mix common and personalized components,…
We define the complexity of DNA sequences as the information content per nucleotide, calculated by means of some Lempel-Ziv data compression algorithm. It is possible to use the statistics of the complexity values of the functional regions…
Genome annotation is essential for understanding the functional elements within genomes. While automated methods are indispensable for processing large-scale genomic data, they often face challenges in accurately predicting gene structures…