Related papers: Massive Multi-Omics Microbiome Database (M3DB): A …
Advances in high-throughput sequencing technologies and bioinformatics approaches over almost the last three decades have substantially increased our ability to explore microorganisms and their functions-including those that have yet to be…
This paper studies the effectiveness of pushing parts of DBMS analytics queries into the Simple Storage Service (S3) engine of Amazon Web Services (AWS), using a recently released capability called S3 Select. We show that some DBMS…
Various computing and data resources on the Web are being enhanced with machine-interpretable semantic descriptions to facilitate better search, discovery and integration. This interconnected metadata constitutes the Semantic Web, whose…
The past decade has seen rapid growth in the number of experimentally realized two-dimensional (2D) materials with diverse chemical and physical properties. However, information on their crystal structure, synthesis routes, and measured or…
Scientific endeavors such as large astronomical surveys generate databases on the terabyte scale. These, usually multidimensional databases must be visualized and mined in order to find interesting objects or to extract meaningful and…
The exponential growth of data in current times and the demand to gain information and knowledge from the data present new challenges for database researchers. Known database systems and algorithms are no longer capable of effectively…
Scientific problems that depend on processing large amounts of data require overcoming challenges in multiple areas: managing large-scale data distribution, co-placement and scheduling of data with compute resources, and storing and…
Microbiome data analysis is essential for understanding host health and disease, yet its inherent sparsity and noise pose major challenges for accurate imputation, hindering downstream tasks such as biomarker discovery. Existing imputation…
Modern medical records include a vast amount of multimodal free text clinical data and imaging data from radiology, cardiology, and digital pathology. Fully mining such big data requires multitasking; otherwise, occult but important aspects…
Scientific investigations that incorporate next generation sequencing involve analyses of high-dimensional data where the need to organize, collate and interpret the outcomes are pressingly important. Currently, data can be collected at the…
Unstructured data formats account for over 80% of the data currently stored, and extracting value from such formats remains a considerable challenge. In particular, current approaches for managing unstructured documents do not support…
We have recently built a database system called BODHI, intended to store plant bio-diversity information. It is based on an object-oriented modeling approach and is developed completely around public-domain software. The unique feature of…
Modern applications, such as social networking systems and e-commerce platforms are centered around using large-scale storage systems for storing and retrieving data. In the presence of concurrent accesses, these storage systems trade off…
In recent IoT (Internet of Things) and Web 2.0 technologies, a critical problem arises with respect to storing and processing the large amount of collected data. In this paper we develop and evaluate distributed infrastructures for storing…
PhysiBoSS is an open-source platform that integrates agent-based modeling of cell populations with intracellular stochastic Boolean networks, enabling multiscale simulations of complex biological behaviors. To promote model sharing and…
Data generation is a key issue in big data benchmarking that aims to generate application-specific data sets to meet the 4V requirements of big data. Specifically, big data generators need to generate scalable data (Volume) of different…
Recent years have seen an unprecedented growth in research that leverages the newest computing paradigm of Internet of Drones, comprising a fleet of connected Unmanned Aerial Vehicles (UAVs) used for a wide range of tasks such as monitoring…
One of the key advances in resolving the big-data problem has been the emergence of an alternative database technology. Today, classic RDBMS are complemented by a rich set of alternative Data Management Systems (DMS) specially designed to…
PanGeneHome is a web server dedicated to the analysis of available microbial pangenomes. For any prokaryotic taxon with at least three sequenced genomes, PanGeneHome provides (i) conservation level of genes, (ii) pangenome and core-genome…
Khiops is an open source machine learning tool designed for mining large multi-table databases. Khiops is based on a unique Bayesian approach that has attracted academic interest with more than 20 publications on topics such as variable…