KnetMiner

Knowledge Network Miner (KnetMiner) is a system of tools used to integrate, search, and visualize biological knowledge graphs (KGs). It's used for searching for information across large biological databases and literature to find links between genes, traits, diseases, and other types of information.

Current KnetMiners (non-exhaustive list)
KnetMiner KGs are built using the company's data integration platform, KnetBuilder, and provided in OXL, Neo4j, and RDF graph formats. It makes use of FAIR data principles and supports the use of a range of biological data formats. The KnetMiner API provides web endpoints to search the KG with genes and keywords, returning the knowledge in graph format. KnetMiner was initially created via the collaboration of researchers at Rothamsted Research and has since expanded and initiated a spin-out process. KnetMiner filed for the KnetMiner trademark on November 25, 2021, and it was entered into the register on May 6, 2022.

KnetMiner hosts a range of different species, including a knowledge graph dedicated to SARS-CoV-2 in response to the 2020 global pandemic, on Rothamsted Research HPC machines. It includes the following:

KnetMiner has been involved in a number of studies, including studies for wheat,  willow, and SARS-CoV-2. It is also being used for exploring pathogen-host interactions in collaboration with PHI-base, soybean loopers, and other species.
 * Triticum aestivum
 * Arabidopsis thaliana
 * Oryza sativa japonica
 * SARS-CoV-2
 * Fusarium graminearum
 * Fusarium culmorum
 * Zymoseptoria tritici

API access
KnetMiner uses REST API access to obtain either JSON outputs of each view type or network views for certain searches.

Funding
KnetMiner is funded by the Biotechnology and Biological Sciences Research Council, a UK research council.