Microbial Bioinformatics Group at MML, SJTU
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Note: the following bioinformatics tools/database are under maintenance :
DeepSecE, ICEberg3 and ICEfinder2, and T4SEfinder. So sorry! Database and tool: |
 under maintenance DeepSecE: deep learning-based prediction of secreted proteins in Gram-negative bacteria. |
| under maintenance ICEberg 3.0 and ICEfinder 2.0: bacterial integrative and conjugative elements. (ICEberg 2.0) |
| ICEO: a biological ontology for representing and analyzing bacterial integrative and conjugative elements. |
| KpVR: replicons, antibiotic resistance/virulence genes in K. pneumoniae plasmids. |
| oriTDB2 and oriTfinder2: the origin-of-transfer regions of bacterial mobile genetic elements. (oriTfinder1) |
| SecReT4: bacterial type IV secretion systems (T4SS). |
| under maintenance T4SEfinder: predict type IV secreted effectors (T4SE) using Protein Language Model. |
| SecReT6 v3.0: bacterial type VI secretion systems (T6SS). |
| TADB 3.0 and TAfinder 2.0: toxin-antitoxin loci in Bacteria and Archaea. (TADB 2.0) |
| VRprofile 2.0: detection of antibiotic resistance-associated mobilome in bacterial pathogens. (VRprofile 1.0) |