Related papers: GlobDB: A comprehensive species-dereplicated micro…
Metaproteomics has become a crucial omics technology for studying microbiomes. In this area, the Unipept ecosystem, accessible at https://unipept.ugent.be, has emerged as an invaluable resource for analyzing metaproteomic data. It offers…
With the growth of the Semantic Web as a medium for creating, consuming, mashing up and republishing data, our ability to trace any statement(s) back to their origin is becoming ever more important. Several approaches have now been proposed…
Microbial genome web portals have a broad range of capabilities that address a number of information-finding and analysis needs for scientists. This article compares the capabilities of the major microbial genome web portals to aid…
Due to the ever increasing importance of the internet, interoperability of heterogeneous data sources is as well of ever increasing importance. Interoperability can be achieved e.g. through data integration and data exchange. Common to both…
I present a new kind of astronomical database based on small text files and a distributed version control system. This encourages the community to work collaboratively. It creates a decentralized, completely open and democratic way of…
We model the competition between recombination and point mutation in microbial genomes, and present evidence for two distinct phases, one uniform, the other genetically diverse. Depending on the specifics of homologous recombination, we…
The UCSC Genome Browser is a popular tool for the exploration and analysis of reference genomes. Mirrors of the UCSC Genome Browser and its contents exist at multiple geographic locations, and this mirror procedure has been modified to…
A bibliographic database will be constructed with the purpose to be a general tool for searching references for galaxy clusters. The structure of the database will be completely different from the available now databases as NED, SIMBAD,…
The present status of Galactic Globular Clusters Database is briefly reviewed. The features implemented at the time writing are described, as well as plans for future improvements.
The explosion in known microbial diversity in the last two decades has made it abundantly clear that microbes in the environment do not exist in isolation; they are members of communities. Accordingly, omics approaches such as metagenomics…
This article presents the OpenCitations Index, a collection of open citation data maintained by OpenCitations, an independent, not-for-profit infrastructure organisation for open scholarship dedicated to publishing open bibliographic and…
Advances in gene sequencing have enabled in silico analyses of microbial genomes and have led to the revision of concepts of microbial taxonomy and evolution. We explore deficiencies in existing multiple sequence global alignment algorithms…
In this paper we introduce the SchemaDB data-set; a collection of relational database schemata in both sql and graph formats. Databases are not commonly shared publicly for reasons of privacy and security, so schemata are not available for…
Motivation: Accurate data analysis and quality control is critical for metagenomic studies. Though many tools exist to analyze metagenomic data there is no consistent framework to integrate and run these tools across projects. Currently,…
Searching for local sequence patterns is one of the basic tasks in bioinformatics. Sequence patterns might have structural, functional or some other relevance, and numerous methods have been developed to detect and analyze them. These…
Microbiology research has access to a very large amount of public information on the habitats of microorganisms. Many areas of microbiology research uses this information, primarily in biodiversity studies. However the habitat information…
In this paper, we introduce the MoisesDB dataset for musical source separation. It consists of 240 tracks from 45 artists, covering twelve musical genres. For each song, we provide its individual audio sources, organized in a two-level…
RefDB is the CMS Monte Carlo Reference Database. It is used for recording and managing all details of physics simulation, reconstruction and analysis requests, for coordinating task assignments to world-wide distributed Regional Centers,…
Virus infection is one of the major diseases that seriously threaten human health. To meet the growing demand for mining and sharing data resources related to antiviral drugs and to accelerate the design and discovery of new antiviral…
Real-world fact-checking often involves verifying claims grounded in structured data at scale. Despite substantial progress in fact-verification benchmarks, this setting remains largely underexplored. In this work, we introduce ClaimDB, a…