(1)
ICEO released!
ICEO:
a
biological ontology for representing and analyzing bacterial integrative and conjugative elements.
Reference: Liu M, Liu J, Liu G, Wang H, Wang X, Deng Z, He Y, Ou HY (2022)
ICEO, a biological ontology for representing and analyzing bacterial integrative and conjugative elements.
Scientific Data, 9:11.
[Abstract]
SPARQL Query for ICEO Some SPARQL query usecases for ICEO(Integrative and Conjugative Element Ontology).
(2) ICEfinder,
the online tool for ICE and IME detection.
The Perl-based local version of ICEfinder is also available. Please contact
Hong-Yu OU.
It could run under Linux version 2.6.32-696.10.2.el6.x86_64 with no additional installations, after making sure everything has executable permissions.After downloading the compressed file 'ICEfinder_linux.tar.gz', please decompress it with gunzip and tar.
Please read the file 'README.txt' to install and run the local version of ICEfinder.
(3) ICE comparison with webACT
(4) WU-BLAST2 search against the ICEs, IMEs or CIMEs in ICEberg
(5) HMMER3::phmmer search against ICE-encoding proteins in ICEberg
(6) VRprofile,
detect virulence or antibiotic resistance genes and extended mobilome-related gene clusters,
including ICEs (
Li et al., Brief Bioinform, 2017)
